22 Pull requests merged by 2 people

• perf: autobump bio/ngsbits/samplesimilarity

  #4150 merged May 30, 2025

• perf: autobump bio/whatshap/haplotag

  #4157 merged May 30, 2025

• perf: autobump bio/vep/annotate

  #4155 merged May 30, 2025

• perf: autobump bio/varlociraptor/call-variants

  #4156 merged May 30, 2025

• perf: autobump bio/vep/cache

  #4152 merged May 30, 2025

• perf: autobump bio/varlociraptor/preprocess-variants

  #4154 merged May 30, 2025

• perf: autobump bio/varlociraptor/control-fdr

  #4153 merged May 30, 2025

• perf: autobump bio/varlociraptor/estimate-alignment-properties

  #4151 merged May 30, 2025

• perf: autobump bio/ngsbits/sampleancestry

  #4149 merged May 30, 2025

• perf: autobump bio/mapdamage2

  #4148 merged May 30, 2025

• perf: autobump bio/hap.py/hap.py

  #4147 merged May 30, 2025

• perf: autobump bio/gdc-api/bam-slicing

  #4146 merged May 30, 2025

• perf: autobump bio/fastp

  #4145 merged May 30, 2025

• perf: autobump bio/entrez/efetch

  #4144 merged May 30, 2025

• perf: autobump bio/deepvariant

  #4143 merged May 30, 2025

• perf: autobump bio/cutadapt/pe

  #4142 merged May 30, 2025

• perf: autobump bio/cutadapt/se

  #4141 merged May 30, 2025

• perf: autobump bio/bustools/text

  #4140 merged May 30, 2025

• perf: autobump bio/bustools/sort

  #4139 merged May 30, 2025

• perf: autobump bio/bbtools

  #4137 merged May 30, 2025

• perf: autobump bio/bustools/count

  #4138 merged May 30, 2025

• fix: remove hardcoded shrink type, and fix typos

  #4123 merged May 28, 2025

3 Pull requests opened by 3 people

• fix!: remove parallel gzip, merge wrappers, added docs, and code refactoring.

  #4158 opened May 30, 2025

• feat: Pyfaidx

  #4159 opened Jun 2, 2025

• feat: Add wrapper for Tandem Repeat Finder (TRF) utility

  #4160 opened Jun 2, 2025

3 Issues closed by 2 people

• gatk variantrecalibrator wrapper does not specify properly the resources path

  #280 closed Jun 1, 2025

• Hisat2 align on large index

  #2537 closed Jun 1, 2025

• DESeq2 Wald Test wrapper prevents setting lfcShrink() type due to hardcoded shrink_extra values

  #4105 closed May 28, 2025

13 Unresolved conversations

Sometimes conversations happen on old items that aren’t yet closed. Here is a list of all the Issues and Pull Requests with unresolved conversations.

• vep download cache vs vep annotate

  #365 commented on Jun 1, 2025 • 0 new comments

• Add cosmic database download wrapper

  #345 commented on Jun 1, 2025 • 0 new comments

• perf: autobump bio/dragmap/align

  #775 commented on May 30, 2025 • 0 new comments

• perf: autobump bio/trimmomatic/pe

  #778 commented on May 30, 2025 • 0 new comments

• perf: autobump bio/trimmomatic/se

  #869 commented on May 30, 2025 • 0 new comments

• feat: new inphared-db wrapper

  #1550 commented on Jun 1, 2025 • 0 new comments

• perf: autobump bio/sortmerna

  #2985 commented on May 30, 2025 • 0 new comments

• feat: Add a wrapper for quarto markdown rendering

  #3003 commented on Jun 1, 2025 • 0 new comments

• perf: autobump bio/rubic

  #3364 commented on May 30, 2025 • 0 new comments

• perf: autobump bio/ngscheckmate/ncm

  #3542 commented on May 30, 2025 • 0 new comments

• perf: autobump bio/pyfastaq/replace_bases

  #4000 commented on May 30, 2025 • 0 new comments

• chore(master): release 6.3.0

  #4124 commented on May 30, 2025 • 0 new comments

• fix: GATK variantrecalibrator wrapper path

  #4126 commented on May 28, 2025 • 0 new comments