v0.7.3

What's Changed

• Feature/upgrade nextflow by @rernst in #74
• Feature/nextflow upgrade 23 10 0 by @BasMonkey in #77

New Contributors

• @BasMonkey made their first contribution in #77

Full Changelog: v0.7.2...v0.7.3

v0.7.2

What's Changed

• Feature/use tmpdir gatk by @ellendejong in #73

Full Changelog: v0.7.1...v0.7.2

v0.7.1

What's Changed

• Feature/hpc rocky by @rernst in #71

Full Changelog: v0.7.0...v0.7.1

v0.7.0

What's Changed

• Hotfix/v0.6.1 to develop by @rernst in #67
• Feature/downsample by @melferink in #68
• Develop by @melferink in #69
• v0.7.0 by @melferink in #70

Full Changelog: v0.6.1...v0.7.0

v0.6.1

Updated modules:

• GATK 4.2.1.0, reviewed in #66
  • GATK/4.2.1.0/GenotypeGvcfs.nf
  • GATK/4.2.1.0/HaplotypeCaller.nf
  • GATK/4.2.1.0/MergeVcfs.nf
  • GATK/4.2.1.0/SelectVariants.nf
  • GATK/4.2.1.0/VariantFiltration.nf

v0.6.0

New modules:

• GATK 4.2.1.0, reviewed in #64
  • GATK/4.2.1.0/GenotypeGvcfs.nf
  • GATK/4.2.1.0/HaplotypeCaller.nf
  • GATK/4.2.1.0/MergeVcfs.nf
  • GATK/4.2.1.0/SelectVariants.nf
  • GATK/4.2.1.0/VariantFiltration.nf

Updated modules:

• SortMeRNA/4.2.0/SortMeRNA.nf, reviewed in #62
• SortMeRNA/4.3.3/SortMeRNA.nf, reviewed in #62

v0.5.0

New modules:

• Pandocker/21.02/MarkdownToPdf.nf
• Utils/workflow.nf - ExportParams

Updated modules:

• Renamed params.singleEnd for multiple RNA modules / tools.
• Add remove commands for tmp files in SortMeRNA/4.2.0/SortMeRNA.nf

v0.4.1

Updated modules:

• Utils/fastq.nf - flowcellLaneFromFastq: UMI support fastq parsing

v0.4.0

New modules:

• VerifyBamID2 2.0.1, reviewed in #47

v0.3.0

New modules:

• MultiQC 1.10, reviewed in #49

Updated modules:

• BWA-Mapping bwa-0.7.17_samtools-1.9, removed deprecated SGE config, reviewed in #49
• RSeQC 3.0.1, reviewed in #46
• STAR 2.7.3a, reviewed in #45
• Salmon 1.2.1, reviewed in #48
• Subread 2.0.0, reviewed in #46
• Utils MergeFastqLanes, reviewed in #45