Version 0.17.0

Changed

• rbt collapse-reads-to-fragments now always writes FASTQ files since consensus reads need to be remapped anyways (MAPQ might change).
• rbt vcf-report can now be parallelized.
• various fixes and improvements for rbt vcf-report
• various fixes for rbt collapse-reads-to-fragments

Version 0.16.0

Changed

• rbt collapse-reads-to-fragments bam writes skipped reads to separate bam file now
• rbt collapse-reads-to-fragments bam does not perform starcode clustering anymore
• Fixed bug in rbt collapse-reads-to-fragments bam failing when read mates map to different chromosomes

Version 0.15.1

Changed

• fixed bug in vcf-split that led to unequally filled splitted VCF/BCFs.

Version 0.15.0

Changed

• Allow INFO field prefixes in vcf-report.
• Require annotation with --hgvsg in vcf-report.
• Fixes for vcf-report layout.

Added

• New subcommand vcf-split for splitting VCF/BCF files into N equal chunks, including BND support.

Version 0.14.3

• various bug fixes

Version 0.14.2

various bug fixes

Version 0.14.0

Added

• New flag --tsv for rbt vcf-report
• --tsv allows adding a custom tsv file that will be visualized in the vcf-report

Version 0.14.0

Added

• New flag --tsv for rbt vcf-report
• --tsv allows adding a custom tsv file that will be visualized in the vcf-report

Version 0.13.0

Changed

• cli syntax for rbt vcf-report has been changed in order to allow BCF/VCF files holding variants from multiple samples

Version 0.12.2

Added

• New flags --info, --js and --format for rbt vcf-report
• --js allows definition of a custom javascript template for creating vcf-reports
• --info and --format allow specifying INFO- and FORMAT-fields that can be used by the custom javascript template