The FAIRDOMHub

247 items tagged with 'data'.

Data files (246)
Documents (1)

/scripts/annotate.sh

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

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Created: 23rd Mar 2020 at 11:29, Last updated: 12th Apr 2020 at 13:17

/output/annot_stPanTr_rep.cds.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 23rd Mar 2020 at 11:28, Last updated: 12th Apr 2020 at 13:54

/output/annot_stPanTr_rep.aa.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 23rd Mar 2020 at 11:28, Last updated: 12th Apr 2020 at 13:53

/output/annot_stPanTr.cds.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 23rd Mar 2020 at 11:27, Last updated: 12th Apr 2020 at 13:53

/output/annot_stPanTr.aa.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

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Created: 23rd Mar 2020 at 11:26, Last updated: 12th Apr 2020 at 13:48

/output/annot_stCuSTr-R_tr_representatives.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:23, Last updated: 12th Apr 2020 at 13:46

/output/annot_stCuSTr-R_tr_all.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:23, Last updated: 12th Apr 2020 at 13:45

/output/annot_stCuSTr-R_cds_representatives.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:22, Last updated: 12th Apr 2020 at 13:44

/output/annot_stCuSTr-R_cds_all.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:22, Last updated: 12th Apr 2020 at 13:44

/output/annot_stCuSTr-R_aa_representatives.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:22, Last updated: 12th Apr 2020 at 13:43

/output/annot_stCuSTr-R_aa_all.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:21, Last updated: 12th Apr 2020 at 13:42

/output/annot_stCuSTr-P_tr_representatives.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:21, Last updated: 12th Apr 2020 at 13:35

/output/annot_stCuSTr-P_tr_all.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:20, Last updated: 12th Apr 2020 at 13:34

/output/annot_stCuSTr-P_cds_representatives.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:20, Last updated: 12th Apr 2020 at 13:34

/output/annot_stCuSTr-P_cds_all.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:19, Last updated: 12th Apr 2020 at 13:32

/output/annot_stCuSTr-P_aa_representatives.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:19, Last updated: 12th Apr 2020 at 13:31

/output/annot_stCuSTr-P_aa_all.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:18, Last updated: 12th Apr 2020 at 13:31

/output/annot_stCuSTr-D_tr_representatives.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:18, Last updated: 12th Apr 2020 at 13:30

/output/annot_stCuSTr-D_tr_all.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:17, Last updated: 12th Apr 2020 at 13:30

/output/annot_stCuSTr-D_cds_representatives.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:16, Last updated: 12th Apr 2020 at 13:29

/output/annot_stCuSTr-D_cds_all.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:15, Last updated: 12th Apr 2020 at 13:28

/output/annot_stCuSTr-D_aa_representatives.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:15, Last updated: 12th Apr 2020 at 13:27

/output/annot_stCuSTr-D_aa_all.zip

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:15, Last updated: 12th Apr 2020 at 13:27

/input/path_to_files.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_09_annotation-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_09_annotation-GFFmerged

Download

Created: 22nd Mar 2020 at 00:14, Last updated: 22nd Mar 2020 at 00:14

/scripts/02_centrifuge_commands.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:14, Last updated: 22nd Mar 2020 at 00:14

/scripts/01_prepareFasta.sh

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:14, Last updated: 22nd Mar 2020 at 00:14

/output/Uploaded_sample_set-report.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:14, Last updated: 22nd Mar 2020 at 00:14

/output/trueSingle.polyploid.tr_report.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:14, Last updated: 22nd Mar 2020 at 00:14

/output/trueSingle.polyploid.tr_kreport.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:14, Last updated: 22nd Mar 2020 at 00:14

/output/trueSingle.polyploid.tr_centrifuge.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:14, Last updated: 22nd Mar 2020 at 00:14

/output/trueSingle.polyploid.cds_report.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:14, Last updated: 22nd Mar 2020 at 00:14

/output/trueSingle.polyploid.cds_kreport.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/trueSingle.polyploid.cds_centrifuge.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/trueSingle.DM.cds_report.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/trueSingle.DM.cds_kreport.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/trueSingle.DM.cds_centrifuge.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/Tetraploid_transcriptomes-report.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/sankey-trueSingle.polyploid.tr.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/sankey-trueSingle.polyploid.cds.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/sankey-trueSingle.DM.cds.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/sankey-Rywal.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/sankey-PW363.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:13, Last updated: 22nd Mar 2020 at 00:13

/output/sankey-Desiree.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:12, Last updated: 22nd Mar 2020 at 00:12

/output/Rywal_report.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:12, Last updated: 22nd Mar 2020 at 00:12

/output/Rywal_kreport.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:12, Last updated: 22nd Mar 2020 at 00:12

/output/Rywal_centrifuge.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:12, Last updated: 22nd Mar 2020 at 00:12

/output/PW363_report.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:12, Last updated: 22nd Mar 2020 at 00:12

/output/PW363_kreport.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:12, Last updated: 22nd Mar 2020 at 00:12

/output/PW363_centrifuge.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:12, Last updated: 22nd Mar 2020 at 00:12

/output/pavian_class_summary_perc.csv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:12, Last updated: 22nd Mar 2020 at 00:12

/output/pavian_class_summary_No.csv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:12, Last updated: 22nd Mar 2020 at 00:12

/output/Desiree_report.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:11, Last updated: 22nd Mar 2020 at 00:12

/output/Desiree_kreport.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:11, Last updated: 22nd Mar 2020 at 00:11

/output/Desiree_centrifuge.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

Download

Created: 22nd Mar 2020 at 00:11, Last updated: 22nd Mar 2020 at 00:11

/intermediate/trueSingle.polyploid.tr.fasta

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_08_centrifuge_3cvs-GFFmerged

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Created: 22nd Mar 2020 at 00:11, Last updated: 22nd Mar 2020 at 00:11

/intermediate/trueSingle.polyploid.cds.fasta

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

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/intermediate/trueSingle.DM.cds.fasta

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

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Created: 22nd Mar 2020 at 00:10, Last updated: 22nd Mar 2020 at 00:11

/input/trueSingle.polyploid.ID

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

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Created: 22nd Mar 2020 at 00:10, Last updated: 22nd Mar 2020 at 00:10

/input/trueSingle.DM.ID

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

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/input/taxdmp.tgz

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_08_centrifuge_3cvs-GFFmerged

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/input/path_to_files.txt

_p_stRT

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Created: 22nd Mar 2020 at 00:09, Last updated: 22nd Mar 2020 at 00:09

/scripts/03_clean-dir.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/scripts/02_map.txt

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/scripts/01_index_ref.txt

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/scripts/00_wget.txt

_p_stRT

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/output/PGSC_SRR10416849/SJ.out.tab

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_SRR10416849/Log.progress.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_SRR10416849/Log.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_SRR10416849/Log.final.out

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/output/PGSC_SRR10416848/SJ.out.tab

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/output/PGSC_SRR10416848/Log.progress.out

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/output/PGSC_SRR10416848/Log.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_SRR10416848/Log.final.out

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/output/PGSC_SRR10416847/SJ.out.tab

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_SRR10416847/Log.progress.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_SRR10416847/Log.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_SRR10416847/Log.final.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_drought123/SJ.out.tab

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_drought123/Log.progress.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_drought123/Log.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/PGSC_drought123/Log.final.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416849/SJ.out.tab

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416849/Log.progress.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416849/Log.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416849/Log.final.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416848/SJ.out.tab

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416848/Log.progress.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416848/Log.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:07, Last updated: 22nd Mar 2020 at 00:07

/output/gff-merged_SRR10416848/Log.final.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416847/SJ.out.tab

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416847/Log.progress.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416847/Log.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_SRR10416847/Log.final.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_drought123/SJ.out.tab

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_drought123/Log.progress.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_drought123/Log.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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/output/gff-merged_drought123/Log.final.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:06, Last updated: 22nd Mar 2020 at 00:06

/output/Desiree_SRR10416849/SJ.out.tab

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:06, Last updated: 22nd Mar 2020 at 00:06

/output/Desiree_SRR10416849/Log.progress.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:06, Last updated: 22nd Mar 2020 at 00:06

/output/Desiree_SRR10416849/Log.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:06, Last updated: 22nd Mar 2020 at 00:06

/output/Desiree_SRR10416849/Log.final.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:06, Last updated: 22nd Mar 2020 at 00:06

/output/Desiree_SRR10416848/SJ.out.tab

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:06, Last updated: 22nd Mar 2020 at 00:06

/output/Desiree_SRR10416848/Log.progress.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_SRR10416848/Log.out

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_SRR10416848/Log.final.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_SRR10416847/SJ.out.tab

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_SRR10416847/Log.progress.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_SRR10416847/Log.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_SRR10416847/Log.final.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_drought123/SJ.out.tab

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_drought123/Log.progress.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_drought123/Log.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/output/Desiree_drought123/Log.final.out

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/intermediate/PGSC/genomeParameters.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:05, Last updated: 22nd Mar 2020 at 00:05

/intermediate/PGSC/chrStart.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:05

/intermediate/PGSC/chrNameLength.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:04

/intermediate/PGSC/chrName.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:04

/intermediate/PGSC/chrLength.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:04

/intermediate/indexPGSC.log

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:04

/intermediate/indexGFFmerged.log

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:04

/intermediate/indexDesiree.log

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:04

/intermediate/gff-merged/genomeParameters.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:04

/intermediate/gff-merged/chrStart.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:04

/intermediate/gff-merged/chrNameLength.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:04, Last updated: 22nd Mar 2020 at 00:04

/intermediate/gff-merged/chrName.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:03, Last updated: 22nd Mar 2020 at 00:04

/intermediate/gff-merged/chrLength.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:03, Last updated: 22nd Mar 2020 at 00:03

/intermediate/Desiree/genomeParameters.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:03, Last updated: 22nd Mar 2020 at 00:03

/intermediate/Desiree/chrStart.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:03, Last updated: 22nd Mar 2020 at 00:03

/intermediate/Desiree/chrNameLength.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:03, Last updated: 22nd Mar 2020 at 00:03

/intermediate/Desiree/chrName.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:03, Last updated: 22nd Mar 2020 at 00:03

/intermediate/Desiree/chrLength.txt

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping

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Created: 22nd Mar 2020 at 00:03, Last updated: 22nd Mar 2020 at 00:03

/input/PGSC_DM_v3.4_transcript-update_representative.fasta

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Created: 22nd Mar 2020 at 00:02, Last updated: 22nd Mar 2020 at 00:03

/scripts/run_TransRate_commands.sh

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:02, Last updated: 22nd Mar 2020 at 00:02

/output/stCuSTr-R_tr_representatives_transrate_usingReference/stCuSTr-R_tr_representatives/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.nsq

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:02

/output/stCuSTr-R_tr_representatives_transrate_usingReference/stCuSTr-R_tr_representatives/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.nin

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:02

/output/stCuSTr-R_tr_representatives_transrate_usingReference/stCuSTr-R_tr_representatives/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.nhr

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:02

/output/stCuSTr-R_tr_representatives_transrate_usingReference/stCuSTr-R_tr_representatives/stCuSTr-R_tr_representatives.nsq

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:02

/output/stCuSTr-R_tr_representatives_transrate_usingReference/stCuSTr-R_tr_representatives/stCuSTr-R_tr_representatives.nin

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:02, Last updated: 22nd Mar 2020 at 00:02

/output/stCuSTr-R_tr_representatives_transrate_usingReference/stCuSTr-R_tr_representatives/stCuSTr-R_tr_representatives.nhr

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01

/output/stCuSTr-R_tr_representatives_transrate_usingReference/stCuSTr-R_tr_representatives/fitting_data

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01, Last updated: 22nd Mar 2020 at 00:01

/output/stCuSTr-R_tr_representatives_transrate_usingReference/stCuSTr-R_tr_representatives/evalues_data

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01, Last updated: 22nd Mar 2020 at 00:01

/output/stCuSTr-R_tr_representatives_transrate_usingReference/stCuSTr-R_tr_representatives/contigs.csv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01, Last updated: 22nd Mar 2020 at 00:01

/output/stCuSTr-R_tr_representatives_transrate_usingReference/assemblies.csv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:01, Last updated: 22nd Mar 2020 at 00:01

/output/stCuSTr-R_tr_representatives_transrate_usingReference.log

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01, Last updated: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/stCuSTr-P_tr_representatives/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.nsq

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/stCuSTr-P_tr_representatives/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.nin

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/stCuSTr-P_tr_representatives/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.nhr

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/stCuSTr-P_tr_representatives/stCuSTr-P_tr_representatives.nsq

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/stCuSTr-P_tr_representatives/stCuSTr-P_tr_representatives.nin

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:01, Last updated: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/stCuSTr-P_tr_representatives/stCuSTr-P_tr_representatives.nhr

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/stCuSTr-P_tr_representatives/fitting_data

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01, Last updated: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/stCuSTr-P_tr_representatives/evalues_data

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:01, Last updated: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/stCuSTr-P_tr_representatives/contigs.csv

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:00, Last updated: 22nd Mar 2020 at 00:01

/output/stCuSTr-P_tr_representatives_transrate_usingReference/assemblies.csv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:00, Last updated: 22nd Mar 2020 at 00:00

/output/stCuSTr-P_tr_representatives_transrate_usingReference.log

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Created: 22nd Mar 2020 at 00:00, Last updated: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/stCuSTr-D_tr_representatives/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.nsq

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/stCuSTr-D_tr_representatives/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.nin

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/stCuSTr-D_tr_representatives/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.nhr

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/stCuSTr-D_tr_representatives/stCuSTr-D_tr_representatives.nsq

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/stCuSTr-D_tr_representatives/stCuSTr-D_tr_representatives.nin

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/stCuSTr-D_tr_representatives/stCuSTr-D_tr_representatives.nhr

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/stCuSTr-D_tr_representatives/fitting_data

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:00, Last updated: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/stCuSTr-D_tr_representatives/evalues_data

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:00, Last updated: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/stCuSTr-D_tr_representatives/contigs.csv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

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Created: 22nd Mar 2020 at 00:00, Last updated: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference/assemblies.csv

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_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

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Created: 22nd Mar 2020 at 00:00, Last updated: 22nd Mar 2020 at 00:00

/output/stCuSTr-D_tr_representatives_transrate_usingReference.log

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

Contributor: Andrej Blejec

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Created: 22nd Mar 2020 at 00:00, Last updated: 22nd Mar 2020 at 00:00

/output/PGSC_DM_v3.4_transcript-update_representative_transrate_usingReference/assemblies.csv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

Contributor: Andrej Blejec

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Created: 19th Mar 2020 at 12:00, Last updated: 19th Mar 2020 at 12:00

/output/PGSC_DM_v3.4_transcript-update_representative_transrate_usingReference.log

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

Contributor: Andrej Blejec

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Studies: _S_04_stPanTr

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Created: 19th Mar 2020 at 12:00, Last updated: 19th Mar 2020 at 12:00

/input/PGSC_DM_v3.4_transcript-update_representative.fasta

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_06_tr_rep-transrate

Download

Created: 19th Mar 2020 at 12:00

/input/path_to_files.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_06_tr_rep-transrate

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_06_tr_rep-transrate

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Created: 19th Mar 2020 at 12:00, Last updated: 19th Mar 2020 at 12:00

/scripts/print.sh

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_05_MSA_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_05_MSA_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:59, Last updated: 19th Mar 2020 at 12:00

/scripts/MSA.py

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_05_MSA_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_05_MSA_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:59, Last updated: 19th Mar 2020 at 11:59

/scripts/MSA-commands.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_05_MSA_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_05_MSA_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:59, Last updated: 19th Mar 2020 at 11:59

/input/path_to_files.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_05_MSA_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_05_MSA_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:58, Last updated: 19th Mar 2020 at 11:58

/input/my.test.aa.fasta

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_05_MSA_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_05_MSA_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:58, Last updated: 19th Mar 2020 at 11:58

/input/folderWithIds/test.IDs2

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_05_MSA_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_05_MSA_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:58, Last updated: 19th Mar 2020 at 11:58

/input/folderWithIds/test.IDs1

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_05_MSA_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_05_MSA_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:58, Last updated: 19th Mar 2020 at 11:58

/scripts/02_BUSCO_plots.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:58, Last updated: 19th Mar 2020 at 11:58

/scripts/01_run_BUSCO_commands.sh

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:58, Last updated: 19th Mar 2020 at 11:58

/output/short_summary_BUSCO_StPGSC4.04n_seq_4_PGSC-p-rep_ITAG-pep_gff-2019-04-23.fasta_solanaceae_odb10.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:58, Last updated: 19th Mar 2020 at 11:58

/output/short_summary_BUSCO_StPGSC4.04n_seq_4_PGSC-p-rep_ITAG-pep_gff-2019-04-23.fasta_embryophyta_odb9.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:58

/output/short_summary_BUSCO_stPanTr_rep.aa.fasta_solanaceae_odb10.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_stPanTr_rep.aa.fasta_embryophyta_odb9.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_stPanTr_alt.aa.fasta_solanaceae_odb10.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_stPanTr_alt.aa.fasta_embryophyta_odb9.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_stPanTr.aa.fasta_solanaceae_odb10.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_stPanTr.aa.fasta_embryophyta_odb9.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_Solanum_tuberosum_PGSC_DM_v4.04_sequences_merged.fasta_solanaceae_odb10.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_Solanum_tuberosum_PGSC_DM_v4.04_sequences_merged.fasta_embryophyta_odb9.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_Solanum_tuberosum_PGSC_DM_v4.04_sequences_chrUn_pep.fasta_solanaceae_odb10.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_Solanum_tuberosum_PGSC_DM_v4.04_sequences_chrUn_pep.fasta_embryophyta_odb9.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_Solanum_tuberosum-PGSC_DM_v34_pep.fasta_solanaceae_odb10.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:57, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_Solanum_tuberosum-PGSC_DM_v34_pep.fasta_embryophyta_odb9.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:56, Last updated: 19th Mar 2020 at 11:57

/output/short_summary_BUSCO_Solanum_tuberosum-ITAG_DM_v1_pep.fasta_solanaceae_odb10.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:56, Last updated: 19th Mar 2020 at 11:56

/output/short_summary_BUSCO_Solanum_tuberosum-ITAG_DM_v1_pep.fasta_embryophyta_odb9.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:56, Last updated: 19th Mar 2020 at 11:56

/output/BUSCO_stPanTr_solanaceae_odb10.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:56, Last updated: 19th Mar 2020 at 11:56

/output/BUSCO_stPanTr_embryophyta_odb9.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_04_BUSCO_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_04_BUSCO_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:56, Last updated: 19th Mar 2020 at 11:56

/scripts/commands-components_1_3cvs-gffmerged.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_03_components_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_03_components_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:56, Last updated: 12th Apr 2020 at 11:28

/output/Solanum_tuberosum_PGSC_DM_v4.04_CDS-to-AA_converter.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_03_components_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_03_components_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:55, Last updated: 19th Mar 2020 at 11:55

/output/rep.cds.IDs

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_03_components_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_03_components_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:55, Last updated: 12th Apr 2020 at 11:32

/output/rep.aa.IDs

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_03_components_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_03_components_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:55, Last updated: 12th Apr 2020 at 11:31

/output/alt.cds.IDs

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_03_components_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_03_components_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:55, Last updated: 12th Apr 2020 at 11:30

/output/alt.aa.IDs

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_03_components_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_03_components_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:55, Last updated: 12th Apr 2020 at 11:30

/input/path_to_files.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_03_components_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_03_components_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:55, Last updated: 19th Mar 2020 at 11:55

/scripts/04_summary_stPanTr_v4.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:54, Last updated: 11th Apr 2020 at 00:05

/scripts/03_stPanTr_components_all.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:54, Last updated: 11th Apr 2020 at 00:03

/scripts/02_cd-hit-est_cdhit-2d.html

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:54, Last updated: 11th Apr 2020 at 00:02

/scripts/01.2_commands-CDHIT-2D.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:54, Last updated: 19th Mar 2020 at 11:54

/scripts/01.1_commands-CDHIT-EST.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:54, Last updated: 19th Mar 2020 at 11:54

/output/VennDiagrams/stPanTr+stCuSTr_geneCount_weak-components.tiff

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:53, Last updated: 11th Apr 2020 at 00:32

/output/VennDiagrams/stPanTr_geneCount_weak-components_repOnly.tiff

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:53, Last updated: 11th Apr 2020 at 00:32

/output/VennDiagrams/stPanTr_geneCount_weak-components_rep+alt_perc.tiff

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:53, Last updated: 11th Apr 2020 at 00:31

/output/VennDiagrams/stPanTr_geneCount_weak-components_rep+alt_and_stCuSTr_alt_perc.tiff

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:53, Last updated: 11th Apr 2020 at 00:30

/output/VennDiagrams/stPanTr_geneCount_weak-components_rep+alt_and_stCuSTr_alt.tiff

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:53, Last updated: 11th Apr 2020 at 00:30

/output/VennDiagrams/stPanTr_geneCount_weak-components_rep+alt.tiff

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:53, Last updated: 11th Apr 2020 at 00:29

/output/VennDiagrams/stPanTr_geneCount_weak-components_rep_perc.tiff

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

Download

Created: 19th Mar 2020 at 11:52, Last updated: 11th Apr 2020 at 00:29

/output/VennDiagrams/stPanTr_geneCount_weak-components_rep.tiff

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:52, Last updated: 11th Apr 2020 at 00:28

/output/VennDiagrams/stPanTr_geneCount_weak-components.tiff

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:52, Last updated: 11th Apr 2020 at 00:27

/output/trueSingle.polyploid.ID

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:52, Last updated: 19th Mar 2020 at 11:52

/output/trueSingle.DM.ID

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:52, Last updated: 19th Mar 2020 at 11:52

/output/stPanTr-clusters.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:51, Last updated: 11th Apr 2020 at 00:24

/output/cdhit-est_singletons_aS.75_c.90.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 11th Apr 2020 at 00:23

/output/cdhit-est_representativesMatched_aS.75_c.90.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 11th Apr 2020 at 00:23

/output/cdhit-est_rep-alt_aS.75_c.90_pairs.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 11th Apr 2020 at 00:22

/output/annot.alias.cds.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 11th Apr 2020 at 00:20

/output/annot.alias.aa.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 11th Apr 2020 at 00:19

/output/5cv_weak-components_withAnnotation.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 11th Apr 2020 at 00:18

/output/5cv_weak-components.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributors: Andrej Blejec, Maja Zagorscak

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 11th Apr 2020 at 00:15

/intermediate/stPanTr_aa_singletons_tetra_on_DM_aS.45_c.90.clstr

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 19th Mar 2020 at 11:50

/intermediate/stPanTr_aa_singletons_DM_on_tetra_aS.45_c.90.clstr

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 19th Mar 2020 at 11:50

/intermediate/stCuSTr_cds_repAlt_cdhitEST-conda_aS.75_c.90.clstr

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50

/intermediate/singletons.tetra.seqID.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:50, Last updated: 19th Mar 2020 at 11:50

/intermediate/singletons.seqID.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:49, Last updated: 19th Mar 2020 at 11:50

/intermediate/singletons.DM.seqID.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:49, Last updated: 19th Mar 2020 at 11:49

/input/StPGSC4.04n_seq_4_PGSC-p-rep_ITAG-pep_gff-2019-04-23.fasta

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:49

/input/Solanum_tuberosum_PGSC_DM_v4.04_converterWithDescriptions.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:49

/input/Solanum_tuberosum_ITAG_DM_v1_descriptions_v2.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:49, Last updated: 19th Mar 2020 at 11:49

/input/path_to_files.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_02_cdhit_3cvs-GFFmerged

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_02_cdhit_3cvs-GFFmerged

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Created: 19th Mar 2020 at 11:49, Last updated: 19th Mar 2020 at 11:49

/scripts/tab_to_fasta.py

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_01_GC_content-count

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_01_GC_content-count

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Created: 19th Mar 2020 at 11:49, Last updated: 19th Mar 2020 at 11:49

/scripts/GC_content.py

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_01_GC_content-count

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_01_GC_content-count

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Created: 19th Mar 2020 at 11:49, Last updated: 19th Mar 2020 at 11:49

/output/StPGSC4.04n_seq_3_PGSC-c-rep_ITAG-cds_gff-2019-04-23.GC_len.tsv

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_01_GC_content-count

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_01_GC_content-count

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Created: 19th Mar 2020 at 11:48

/output/Solanum_tuberosum_PGSC_merged.CDS_GC.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_01_GC_content-count

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_01_GC_content-count

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Created: 19th Mar 2020 at 11:48

/output/Solanum_tuberosum-ITAG_DM_v1_cds_GC.txt

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_01_GC_content-count

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_01_GC_content-count

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Created: 19th Mar 2020 at 11:48

/input/StPGSC4.04n_seq_3_PGSC-c-rep_ITAG-cds_gff-2019-04-23.fasta

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_01_GC_content-count

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_01_GC_content-count

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Created: 19th Mar 2020 at 11:48

/input/Solanum_tuberosum_PGSC_merged.fasta

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_01_GC_content-count

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_01_GC_content-count

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Created: 19th Mar 2020 at 11:48

/input/Solanum_tuberosum-ITAG_DM_v1_cds.fasta

_p_stRT

_p_stRT/_I_STRT/_S_04_stPanTr/_A_01_GC_content-count

Creator: Andrej Blejec

Contributor: Andrej Blejec

Investigations: _I_STRT

Studies: _S_04_stPanTr

Assays: _A_01_GC_content-count

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Created: 19th Mar 2020 at 11:48

Data Management Plan

CEPOPA - Development of sustainable chemoenzymatic processes for optically pure amines from alcohols or alkynes

Data Management Plan (v.1.0) of the project CEPOPA.

Creator: Ioannis Pavlidis

Contributor: Ioannis Pavlidis

DOI: 10.15490/fairdomhub.1.document.690.1

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

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Created: 19th May 2020 at 12:43