Changes It creates the reference genome indices if not available Bugfix The SplitNCigarReads operation was failing due to a wrong paramete
Non functional changes Migrate workflow to DSL 2 Automated tests on GitHub Make conda dependencies ...
Changes Add an initial sort step to avoid GATK strange behaviour with unsorted BAMs Record software...
Changes Support for single sample through CLI parameters --input_name, --input_tumor_bam and --inpu...
Changes Add optional step SplitNCigarReads to support RNA data Change Picard's MarkDuplicates by sa...
Forces the Java version in the conda environment to openJDK 8 Fixes an issue with the collection of ...
Changes: add support for a single input BAM file fix realignment step when no known indels are p...
Minor changes: The output of HsMetrics was missing some fundamental fields, this is corrected no
Bugifix Picard's CollectMultipleMetrics has an unmet dependency to R in the bioconda module. This is...
Changes Bugfix on the sort before MarkDuplicates using default temp folder which eventually lead to...
Changes Upgraded GATK version to 4.2.5.0 (see release notes https://github.com/broadinstitute/gatk/...
Changes: Number of required parametrised on --cpus, default 8 Memory required parametrised on --...
Changes: Add an optional step to get metrics from the BAM file using Picard's CollectMultipleMetric...
Changes: Added parameters --input_fastas and --input_fastqs to enable the processing of multiple ...
Major changes: Add coverage analysis for FASTQ pipeline Add Pfam domain annotations in the outpu...
Changes Performance improvement by merging the last two steps (SnpEff and bgzip/tabix) into a singl...
Non functional changes Migrate workflow to DSL 2 Automated tests on GitHub Make conda dependencies ...
Changes Add an initial sort step to avoid GATK strange behaviour with unsorted BAMs Record software...
Changes Support for single sample through CLI parameters --input_name, --input_tumor_bam and --inpu...
Changes Add optional step SplitNCigarReads to support RNA data Change Picard's MarkDuplicates by sa...
Forces the Java version in the conda environment to openJDK 8 Fixes an issue with the collection of ...
Changes: add support for a single input BAM file fix realignment step when no known indels are p...
Minor changes: The output of HsMetrics was missing some fundamental fields, this is corrected no
Bugifix Picard's CollectMultipleMetrics has an unmet dependency to R in the bioconda module. This is...
Changes Bugfix on the sort before MarkDuplicates using default temp folder which eventually lead to...
Changes Upgraded GATK version to 4.2.5.0 (see release notes https://github.com/broadinstitute/gatk/...
Changes: Number of required parametrised on --cpus, default 8 Memory required parametrised on --...
Changes: Add an optional step to get metrics from the BAM file using Picard's CollectMultipleMetric...
Changes: Added parameters --input_fastas and --input_fastqs to enable the processing of multiple ...
Major changes: Add coverage analysis for FASTQ pipeline Add Pfam domain annotations in the outpu...
Changes Performance improvement by merging the last two steps (SnpEff and bgzip/tabix) into a singl...
Non functional changes Migrate workflow to DSL 2 Automated tests on GitHub Make conda dependencies ...
Changes Add an initial sort step to avoid GATK strange behaviour with unsorted BAMs Record software...
Changes Support for single sample through CLI parameters --input_name, --input_tumor_bam and --inpu...
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