Publication date
April 2016
DOIAbstract
Migrates all Tabix and Bio::DB::Sam to Bio::DB::HTS::Tabix and Bio::DB::Sam Cleans up install note: you will need PCAP-core v2.0
Migrates all Tabix and Bio::DB::Sam to Bio::DB::HTS::Tabix and Bio::DB::Sam Cleans up install note: you will need PCAP-core v2.0
Removed use of legacy Tabix codebase and switches to samtools 1.2+ Switches to github version of vcf...
What's Changed chore: updated CD.yml by @alsmith151 in https://github.com/sims-lab/CapCruncher/pull...
What's Changed Update default Postgres version to 14 by @mzur Important: Create a database dump,...
Removed use of legacy Tabix codebase and switches to samtools 1.2+ Several bugfixes to test case
Some of the underlying tools don't support CRAM so only removed legacy perl bindings at presen
Now uses UCSC defined types as opposed to genome/exome etc. WXS,WGS,AMPLICON,RNASEQ defined so far U...
3.0.1 Update tabix calls to directly use query_full (solves GRCh38 contig name issues)
Adds RNA downloads to PanCancer download tool gnos_pull.pl Hardening of external process handling in...
Update Dockstore version to 1.3.6 Update cwltool to newer version required to Dockstore 1.3.6 Update...
Workaround fix for sam files with no reads causing failure in bamsort. This is likely only to occur...
The input step (which runs pindel_input_gen.pl) is now significantly faster (~50% shorter run time)....
Fixes #46, apparent use of experimental features and/or typos causing issues in perl-5.2
A late-breaking discovery forced another release. It turns out that PyPI will not accept a package t...
Version 1.2.1 Commits [f4f6ff0a] Merge pull request #31 from VasudhaJha/feature/export-all-files [f...
The image is now based on ubuntu:18.04 (instead of ubuntu:14.04 previously) and PostgreSQL 11.5 (9.3...
Removed use of legacy Tabix codebase and switches to samtools 1.2+ Switches to github version of vcf...
What's Changed chore: updated CD.yml by @alsmith151 in https://github.com/sims-lab/CapCruncher/pull...
What's Changed Update default Postgres version to 14 by @mzur Important: Create a database dump,...
Removed use of legacy Tabix codebase and switches to samtools 1.2+ Several bugfixes to test case
Some of the underlying tools don't support CRAM so only removed legacy perl bindings at presen
Now uses UCSC defined types as opposed to genome/exome etc. WXS,WGS,AMPLICON,RNASEQ defined so far U...
3.0.1 Update tabix calls to directly use query_full (solves GRCh38 contig name issues)
Adds RNA downloads to PanCancer download tool gnos_pull.pl Hardening of external process handling in...
Update Dockstore version to 1.3.6 Update cwltool to newer version required to Dockstore 1.3.6 Update...
Workaround fix for sam files with no reads causing failure in bamsort. This is likely only to occur...
The input step (which runs pindel_input_gen.pl) is now significantly faster (~50% shorter run time)....
Fixes #46, apparent use of experimental features and/or typos causing issues in perl-5.2
A late-breaking discovery forced another release. It turns out that PyPI will not accept a package t...
Version 1.2.1 Commits [f4f6ff0a] Merge pull request #31 from VasudhaJha/feature/export-all-files [f...
The image is now based on ubuntu:18.04 (instead of ubuntu:14.04 previously) and PostgreSQL 11.5 (9.3...
Removed use of legacy Tabix codebase and switches to samtools 1.2+ Switches to github version of vcf...
What's Changed chore: updated CD.yml by @alsmith151 in https://github.com/sims-lab/CapCruncher/pull...
What's Changed Update default Postgres version to 14 by @mzur Important: Create a database dump,...
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