Changes Add an initial sort step to avoid GATK strange behaviour with unsorted BAMs Record software versions in the output for every sampl
A BioWDL workflow for preprocessing BAM files for variantcalling. Based on the GATK Best Practices. ...
Changes Support for single sample through CLI parameters --input_name, --input_tumor_bam and --inpu...
Changes Removes pickle-mixin from dependencies Upgrades pysam version to 0.19.1 Fix biopython versi...
Changes Bugfix on the sort before MarkDuplicates using default temp folder which eventually lead to...
Changes: Add an optional step to get metrics from the BAM file using Picard's CollectMultipleMetric...
Changes Upgraded GATK version to 4.2.5.0 (see release notes https://github.com/broadinstitute/gatk/...
Changes: Improve mark duplicates step performance by ensuring the BAM is query-sorted Optionally...
Changes: add support for a single input BAM file fix realignment step when no known indels are p...
Bugfix on swapped tumor and normal BAMs in the nextflow workflow. The Python package version remains...
Changes Add optional step SplitNCigarReads to support RNA data Change Picard's MarkDuplicates by sa...
Changes Amend documentation for non optional --reference Add tag with sample name to fastp process...
A BioWDL workflow for preprocessing BAM files for variantcalling. Based on the GATK Best Practices. ...
A BioWDL workflow for preprocessing BAM files for variantcalling. Based on the GATK Best Practices. ...
Non functional changes Migrate workflow to DSL 2 Automated tests on GitHub Make conda dependencies ...
Minor changes: The output of HsMetrics was missing some fundamental fields, this is corrected no
A BioWDL workflow for preprocessing BAM files for variantcalling. Based on the GATK Best Practices. ...
Changes Support for single sample through CLI parameters --input_name, --input_tumor_bam and --inpu...
Changes Removes pickle-mixin from dependencies Upgrades pysam version to 0.19.1 Fix biopython versi...
Changes Bugfix on the sort before MarkDuplicates using default temp folder which eventually lead to...
Changes: Add an optional step to get metrics from the BAM file using Picard's CollectMultipleMetric...
Changes Upgraded GATK version to 4.2.5.0 (see release notes https://github.com/broadinstitute/gatk/...
Changes: Improve mark duplicates step performance by ensuring the BAM is query-sorted Optionally...
Changes: add support for a single input BAM file fix realignment step when no known indels are p...
Bugfix on swapped tumor and normal BAMs in the nextflow workflow. The Python package version remains...
Changes Add optional step SplitNCigarReads to support RNA data Change Picard's MarkDuplicates by sa...
Changes Amend documentation for non optional --reference Add tag with sample name to fastp process...
A BioWDL workflow for preprocessing BAM files for variantcalling. Based on the GATK Best Practices. ...
A BioWDL workflow for preprocessing BAM files for variantcalling. Based on the GATK Best Practices. ...
Non functional changes Migrate workflow to DSL 2 Automated tests on GitHub Make conda dependencies ...
Minor changes: The output of HsMetrics was missing some fundamental fields, this is corrected no
A BioWDL workflow for preprocessing BAM files for variantcalling. Based on the GATK Best Practices. ...
Changes Support for single sample through CLI parameters --input_name, --input_tumor_bam and --inpu...
Changes Removes pickle-mixin from dependencies Upgrades pysam version to 0.19.1 Fix biopython versi...
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