Feed switch 2015-09, 2016-01 Solbergstranda gross phenotypes
Spreadsheet of weight, length and sex of fish sampled after feed switch between vegetable and marine oil, in September 2015 (freshwater) and January 2016 (seawater).
Spreadsheet columns are: Date (YYYY-MM-DD) Day (day zero is the day before first feeding with new feed) Inputter (person entering data into Excel) Tank (1, 2, 4, 5 with Atlantic salmon, 3 and 6 with rainbow trout) Section (tanks were divided in half using perforated walls) Treatment (explained in sheet "treatments") Species Fish # (in the spreadsheet, fish are numbered within tank-sections for Sept 2015 and within treatments for Jan 2016. I suspect the sample tubes were numbered within treatments even for Sept 2015) Weight g Length mm Start cutting (approximate time of day, and only sporadically registered) Sex (male, female) Notes (free text) End freezing (time of day, sporadically registered) Duration (computed from time-points if registered) "Tube label (X = tissue: G=gut, L=liver, M=muscle)" (e.g. D1-M->V-X-3/9#1 for 2015 and D20_MA_VO_X_T2-5 for 2016, see https://fairdomhub.org/sops/248 Life stage (FW = freshwater, SW = saltwater) Fish number (1, 2, ..., 549). Unique within the GSF1 experiment. Sample ID stem: e.g. GSF1_SW_D20_VOMA_F546 means "GSF1 experiment, SW life stage, Day 20, vegetable-oil-to-marine diet switch, fish number 546". G, L, M: Tissue sample identifiers for gut, liver, muscle (appending _G, _L, _M) RNAseq FG id: Identifiers used by Fabian Grammes for RNAseq data. Generated as documented in https://gist.github.com/jonovik/62f0216e7fae39e34305ea0eda049ca3.
The sheet "sanity checks" contains pivot tables of number of fish sampled per day, tank, section, treatment etc. The sheet "RNAseq ID from Version 3" contains a copy of Version 3, with fish numbers (F-numbers) added for lookup.
Version 2 is also on Bitbucket as https://bitbucket.org/cigenebb/genosysfat/src/9b764bc/genosysfat%20sampling%20solbergstranda%202015-09,%202016-01.xlsx Version 3 was generated as per https://gist.github.com/jonovik/62f0216e7fae39e34305ea0eda049ca3. Version 4 is essentially a revert to Version 2 but merging in RNAseq identifiers from Version 3.
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Created: 10th Mar 2016 at 21:43
Last updated: 3rd Jun 2022 at 13:12
Last used: 25th Jun 2022 at 22:37
Version 4 Created 1st May 2018 at 12:16 by Jon Olav Vik
Add easier-to-parse sample identifiers for future use, including metabolomics at NTNU May 2018 onwards. Revert the rest of the spreadsheet to Version 2, but add a sheet from Version 3, which has Fabian Grammes' identifiers used for RNAseq analysis. The script to generate those identifiers is at https://gist.github.com/jonovik/62f0216e7fae39e34305ea0eda049ca3.