v5.0.0
⚠ BREAKING CHANGES
- better names for quast wrapper output files (#3377)
Bug Fixes
Performance Improvements
- autobump bio/gatk/applybqsr (#3396) (6dc7b6a)
- autobump bio/gatk/applybqsrspark (#3410) (ab28e7c)
- autobump bio/gatk/applyvqsr (#3395) (a4bfba4)
- autobump bio/gatk/baserecalibrator (#3397) (e789370)
- autobump bio/gatk/baserecalibratorspark (#3392) (e948f6b)
- autobump bio/gatk/calculatecontamination (#3402) (d88f909)
- autobump bio/gatk/callcopyratiosegments (#3399) (ca45598)
- autobump bio/gatk/cleansam (#3390) (f5e0e41)
- autobump bio/gatk/collectalleliccounts (#3405) (e03c5d6)
- autobump bio/gatk/collectreadcounts (#3385) (a8ac6e1)
- autobump bio/gatk/combinegvcfs (#3381) (b69d3e6)
- autobump bio/gatk/denoisereadcounts (#3393) (c3e6d89)
- autobump bio/gatk/depthofcoverage (#3389) (d0055c7)
- autobump bio/gatk/estimatelibrarycomplexity (#3398) (b11191d)
- autobump bio/gatk/filtermutectcalls (#3406) (bb865dd)
- autobump bio/gatk/genomicsdbimport (#3394) (50b3b5a)
- autobump bio/gatk/genotypegvcfs (#3412) (d46d029)
- autobump bio/gatk/getpileupsummaries (#3407) (03efdda)
- autobump bio/gatk/haplotypecaller (#3388) (95eddf6)
- autobump bio/gatk/intervallisttobed (#3387) (62715cb)
- autobump bio/gatk/learnreadorientationmodel (#3382) (6fcb1f2)
- autobump bio/gatk/leftalignandtrimvariants (#3408) (eacf6be)
- autobump bio/gatk/markduplicatesspark (#3400) (79de6c1)
- autobump bio/gatk/modelsegments (#3379) (ba9b042)
- autobump bio/gatk/mutect (#3401) (664f7fa)
- autobump bio/gatk/printreadsspark (#3404) (2fa4977)
- autobump bio/gatk/scatterintervalsbyns (#3386) (2ee18b9)
- autobump bio/gatk/selectvariants (#3403) (e3ebedb)
- autobump bio/gatk/splitintervals (#3378) (3df1c1a)
- autobump bio/gatk/splitncigarreads (#3409) (d202865)
- autobump bio/gatk/variantannotator (#3391) (f8d44e3)
- autobump bio/gatk/varianteval (#3384) (d2d68d9)
- autobump bio/gatk/variantfiltration (#3411) (8249d59)
- autobump bio/gatk/variantrecalibrator (#3383) (366a3df)
- autobump bio/gatk/variantstotable (#3380) (ded1d59)
- autobump bio/pbmm2/align (#3417) (ab826d6)
- autobump bio/pbmm2/index (#3416) (36c518f)
- autobump bio/pretext/graph (#3415) (b454cc0)
- autobump bio/rseqc/bam_stat (#3418) (233362c)
- autobump bio/ucsc/bedGraphToBigWig (#3419) (d0c1b18)
- autobump bio/ucsc/faToTwoBit (#3420) (5f793b4)
- autobump bio/ucsc/twoBitInfo (#3421) (dfb23f7)
- autobump bio/ucsc/twoBitToFa (#3422) (a783c85)