Changes: Memory and CPUs are now parametrised more granularily Analysis intervals are now optional Integrates GitHub CI to replace Gitlab CI in the futur
Changes Add STAR for alignment of RNA-seq data Record software versions in the output Repository ha...
Changes It creates the reference genome indices if not available Bugfix The SplitNCigarReads oper...
Changes Add support for STAR two pass mode which increases sensitivity in novel splice junctions Ad...
Changes: Number of required parametrised on --cpus, default 8 Memory required parametrised on --...
Changes: Add support for replicates in Mutect2 Improve tests to check output file
Changes Support for single sample through CLI parameters --input_name, --input_tumor_bam and --inpu...
Non functional changes Migrate workflow to DSL 2 Make conda dependencies more granular Improve test
Changes Integration of funcotator as an optional final step. Output in VCF and MAF formats Argument...
Changes Upgraded GATK version to 4.2.5.0 (see release notes https://github.com/broadinstitute/gatk/...
Non functional changes Migrate workflow to DSL 2 Automated tests on GitHub Make conda dependencies ...
Changes Performance improvement by merging the last two steps (SnpEff and bgzip/tabix) into a singl...
Changes The GnomAD resource is now optional, in case it is not available or you don't trust how it ...
Changes Add optional step SplitNCigarReads to support RNA data Change Picard's MarkDuplicates by sa...
Changes Added an initial step of read trimming with FASTP. This also provides a QC report in HTML a...
Changes Add support for STAR for RNA-seq alignment Record software versions in the samples outpu
Changes Add STAR for alignment of RNA-seq data Record software versions in the output Repository ha...
Changes It creates the reference genome indices if not available Bugfix The SplitNCigarReads oper...
Changes Add support for STAR two pass mode which increases sensitivity in novel splice junctions Ad...
Changes: Number of required parametrised on --cpus, default 8 Memory required parametrised on --...
Changes: Add support for replicates in Mutect2 Improve tests to check output file
Changes Support for single sample through CLI parameters --input_name, --input_tumor_bam and --inpu...
Non functional changes Migrate workflow to DSL 2 Make conda dependencies more granular Improve test
Changes Integration of funcotator as an optional final step. Output in VCF and MAF formats Argument...
Changes Upgraded GATK version to 4.2.5.0 (see release notes https://github.com/broadinstitute/gatk/...
Non functional changes Migrate workflow to DSL 2 Automated tests on GitHub Make conda dependencies ...
Changes Performance improvement by merging the last two steps (SnpEff and bgzip/tabix) into a singl...
Changes The GnomAD resource is now optional, in case it is not available or you don't trust how it ...
Changes Add optional step SplitNCigarReads to support RNA data Change Picard's MarkDuplicates by sa...
Changes Added an initial step of read trimming with FASTP. This also provides a QC report in HTML a...
Changes Add support for STAR for RNA-seq alignment Record software versions in the samples outpu
Changes Add STAR for alignment of RNA-seq data Record software versions in the output Repository ha...
Changes It creates the reference genome indices if not available Bugfix The SplitNCigarReads oper...
Changes Add support for STAR two pass mode which increases sensitivity in novel splice junctions Ad...
DOI
Add to ORKG