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This repository has been archived by the owner on Jun 16, 2023. It is now read-only.
What changes need to be made? Please provide enough detail for another participant to make the update.
FNL would like two long tables for each analysis type (cohort+cancer_group and cancer_group). The tables should look something like this (eg for cancer_group table, for which we will use all_cohorts as the cohort):
@jharenza is this instead of the metadata.tsv file or instead of individual tsv files corresponding to the plots? If the latter, then should we keep the metadata.tsv file?
@jharenza is this instead of the metadata.tsv file or instead of individual tsv files corresponding to the plots? If the latter, then should we keep the metadata.tsv file?
This would be instead of all tables - so you would just have two tables at the end, one cohort+cancer_group for all genes and all plots, along with api links and then one cancer_group with cohort being all_cohorts for all genes and all plots with api links. They will somehow enable export of the tables from the long format table (guessing based on api link).
runjin326
changed the title
Updated analysis: tumor-gtex-plots - collapse tables
Updated analysis: tumor-gtex-plots - collapse tables (rerun after v9)
Aug 27, 2021
runjin326
changed the title
Updated analysis: tumor-gtex-plots - collapse tables (rerun after v9)
Updated analysis: tumor-gtex-plots - collapse tables
Aug 27, 2021
What analysis module should be updated and why?
tumor-gtex-plots
What changes need to be made? Please provide enough detail for another participant to make the update.
FNL would like two long tables for each analysis type (cohort+cancer_group and cancer_group). The tables should look something like this (eg for
cancer_group
table, for which we will useall_cohorts
as the cohort):also pasting an excel example for whichever is easier for you.
mock_all_cohort_tpm_plot_data.xlsx
where
ENSG_id
,efo_code
,mondo_code
, anduberon_code
will be added later, after #112 is completed and whereplot_api
is the api link to each plotWhat input data should be used? Which data were used in the version being updated?
When do you expect the revised analysis will be completed?
this week?
Who will complete the updated analysis?
@komalsrathi
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