_A_02.2_assembly-contribution-count

Assay: _A_02.2_assembly-contribution-count Short Name: 02.2_assembly-contribution-count Assay Class: DRY Assay Type: count Title: assembly contribution count Description: assembly contribution count, input/output tr2aacds pISA Assay creation date: 2019-10-22 pISA Assay creator: Maja Zagorscak Phenodata: None Featuredata: None Data: see ./input/path_to_files.txt

DOI: 10.15490/fairdomhub.1.assay.1163.1

Zenodo URL: None

Created at: 26th Nov 2019 at 12:05

Contents

/reports/Figure3.pdf

Number of transcripts from de novo assemblies contributing to cultivar Désirée, transcriptome and number of complete BUSCOs found in assemblies.
Proportion of all contigs in de novo assembly (blue bars) and proportion of EvidentialGene okay set (green bars), and the number of complete BUSCOs (dots) using https://busco.ezlab.org/datasets/embryophyta_odb9.tar.gz set are shown.
Assembly software abbreviations: CLCdn - CLC Genomics Workbench, Vdn - Velvet.

  • Figure3.pdf

/reports/SupplementaryFigure1.pdf

Number of transcripts from de novo assemblies contributing to breeding clone PW363, transcriptome and number of complete BUSCOs found in assemblies.
Proportion of all contigs in de novo assembly (blue bars) and proportion of EvidentialGene okay set (green bars), and the number of complete BUSCOs (dots) using https://busco.ezlab.org/datasets/embryophyta_odb9.tar.gz set are shown. Assembly software abbreviations: CLCdn - CLC Genomics Workbench, Vdn - Velvet, Sdn - SPAdes.

  • SupplementaryFigure1.pdf

/reports/SupplementaryFigure2.pdf

Number of transcripts from de novo assemblies contributing to cultivar Rywal, transcriptome and number of complete BUSCOs found in assemblies.
Proportion of all contigs in de novo assembly (blue bars) and proportion of EvidentialGene okay set (green bars), and the number of complete BUSCOs (dots) using https://busco.ezlab.org/datasets/embryophyta_odb9.tar.gz set are shown. Assembly software abbreviations: CLCdn - CLC Genomics Workbench, Vdn - Velvet, Sdn - SPAdes, PBdn - PacBio.

  • SupplementaryFigure2.pdf

/input/input.tar

No description specified

  • input.tar

/intermediate_Desiree.tar.gz

No description specified

  • intermediate_Desiree.tar.gz

/intermediate_PW363.tar.gz

No description specified

  • intermediate_PW363.tar.gz

/intermediate_Rywal.tar.gz

No description specified

  • intermediate_Rywal.tar.gz

/output/output.tar

No description specified

  • output.tar

/scripts/scripts.tar

No description specified

  • scripts.tar

Cultivar-specific transcriptome and pan-transcriptome reconstruction of tetraploid potato

Background: Although the reference genome of Solanum tuberosum group Phureja double-monoploid (DM) clone is available, knowledge on the genetic diversity of the highly heterozygous tetraploid group Tuberosum, representing most cultivated varieties, remains largely unexplored. This lack of knowledge hinders further progress in potato research and its subsequent applications in breeding.
Results: For the DM genome assembly, two only partially-overlapping gene models exist differing in a unique set
...

/_Assay_METADATA.TXT

No description specified

  • _Assay_METADATA.TXT

/README.MD

No description specified

  • README.MD
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Citation
Zagorscak, M. (2019). _A_02.2_assembly-contribution-count. FAIRDOMHub. https://doi.org/10.15490/FAIRDOMHUB.1.ASSAY.1163.1
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Created: 26th Nov 2019 at 12:05

Last updated: 26th Nov 2019 at 12:05

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