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Commits on Jun 25, 2020

• GATK BaseRecalibrationSpark (snakemake#121)

  Show description for 67e0a48
  

  3 peopleauthored
  67e0a48

• wrapper for picard CollectMultipleMetrics (snakemake#120)

  Show description for 4a44a81
  AntonieV

  authored
  4a44a81

• Optitype wrapper (snakemake#128)

  Show description for 745a0f7
  

  jafors

  and

  jafors

  authored
  745a0f7

• Shovill wrapper (snakemake#111)

  Show description for c6ca230
  sk-sahu

  authored
  c6ca230

• Wrapper for preseq lc_extrap to predict the yield for future experime… (snakemake#119)

  Show description for 30741f5
  AntonieV

  authored
  30741f5

• Bed to interval list (snakemake#122)

  Show description for bb5dba3
  kilpert

  authored
  bb5dba3

• add extra to params (snakemake#124)

  kilpert

  authored
  4a25c5a

• Wrapper for razers3 (snakemake#125)

  Show description for 6ea2372
  

  jafors

  and

  jafors

  authored
  6ea2372

• cutadapt 2.10 (snakemake#126)

  christopher-schroeder

  authored
  7ca841c

Commits on Jun 22, 2020

• Deepvariant wrapper (snakemake#112)

  Show description for 7db7233
  yiolino

  authored
  7db7233

Commits on Jun 19, 2020

• Added thread parameter use in fastqc wrapper (snakemake#117)

  Show description for 5c11e72
  

  3 peopleauthored
  5c11e72

• Update pTrimmer (snakemake#118)

  Show description for 5c52670
  FelixMoelder

  authored
  5c52670

Commits on Jun 12, 2020

• Updated wrapper for pTrimmer v1.3.2 (snakemake#115)

  Show description for ee2e736
  FelixMoelder

  authored
  ee2e736

Commits on Jun 5, 2020

• fix gdc api token reading (snakemake#108)

  Show description for 7ae4312
  dlaehnemann

  authored
  7ae4312

• bamtools filter and bamtools stats (snakemake#110)

  Show description for e7d3238
  AntonieV

  authored
  e7d3238

• Improved exclusion handling (snakemake#113)

  Show description for bbd0fec
  FelixMoelder

  authored
  bbd0fec

Commits on Jun 1, 2020

• always run vep in --offline mode

  johanneskoester

  committed
  f18ff69

Commits on May 28, 2020

• do not check for updates when downloading VEP cache

  johanneskoester

  committed
  05539e0

• add curl dependency

  johanneskoester

  committed
  7909ad6

• samtools idxstats wrapper (snakemake#105)

  Show description for 0801236
  

  3 peopleauthored
  0801236

• Homer Analysis - makeTagDirectory, findPeaks and getDifferentialPeaks (snakemake#107)

  Show description for a657688
  

  3 peopleauthored
  a657688

• include BAM indexes BAI as freebayes required input (snakemake#109)

  dlaehnemann

  authored
  fad789b

Commits on May 22, 2020

• Bedtools multiple file merging (snakemake#90)

  Show description for d1e6f74
  FelixMoelder

  authored
  d1e6f74

• GDC BAM Slicing download wrapper (snakemake#106)

  Show description for 6a71a24
  

  dlaehnemann

  and

  johanneskoester

  authored
  6a71a24

Commits on May 15, 2020

• Simplified and more robust download of variation data (snakemake#104)

  Show description for 2710439
  johanneskoester

  authored
  2710439

• add gdc-client download wrapper (snakemake#98)

  Show description for 3fd4173
  dlaehnemann

  authored
  3fd4173

• Seqtk subsample (snakemake#100)

  Show description for 8a4b5d6
  

  kilpert

  and

  johanneskoester

  authored
  8a4b5d6

• Update samtools (snakemake#103)

  Show description for d6b73e1
  FelixMoelder

  authored
  d6b73e1

Commits on May 8, 2020

• update minimap2 (snakemake#97)

  mbhall88

  authored
  212e514

• add prosolo wrappers (snakemake#88)

  Show description for 99bd904
  

  dlaehnemann

  and

  johanneskoester

  authored
  99bd904

Commits on May 6, 2020

• Merge branch 'master' of ssh://github.com/snakemake/snakemake-wrappers

  johanneskoester

  committed
  28a7b4d

• fix vep annotate

  johanneskoester

  committed
  745596b

• Fix variation download wrapper (snakemake#95)

  Show description for fc55f2c
  johanneskoester

  authored
  fc55f2c

• select the right directory when inferring species and release

  johanneskoester

  committed
  824f088

• use threads (snakemake#96)

  johanneskoester

  authored
  cee09a6

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