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STAR index failing on gitlab-runner with 4 cores / 16 gigs RAM

Status: Open.

#17 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Aug 13, 2021

Add paths/links to auxialliary data & display on CI-built info website for each genome

Status: Open.

#16 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Apr 30, 2021

Add cellranger mkref (cellranger indeces)

enhancementNew feature or requestNew feature or request

Status: Open.

#15 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Feb 9, 2021

Create multi-species genomes (hybrids, xenograft)

enhancementNew feature or requestNew feature or request

Status: Open.

#14 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Feb 4, 2021

Add creation of bowtie2 index

enhancementNew feature or requestNew feature or request

Status: Open.

#13 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Feb 4, 2021

Use kubernetes to run pipeline, instead of a static VM.

enhancementNew feature or requestNew feature or request

Status: Open.

#12 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Dec 1, 2020

Idea: Use snakemake-incudes to define subroutines in the pipeline (and conditionally execute)

enhancementNew feature or requestNew feature or request

Status: Open.

#7 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Oct 5, 2020

List of files to be generated for OTP

enhancementNew feature or requestNew feature or request

Status: Open.

#6 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Aug 26, 2020

Retrieve genomes from sources other than ENSEMBL

Status: Open.

#5 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Aug 19, 2020

Define a Snakemake report template

enhancementNew feature or requestNew feature or request

Status: Open.

#4 In DKFZ-ODCF/reference-data;

· fritjoflammers opened on Aug 14, 2020