prepare.yml

channels:
  - conda-forge
  - nodefaults
dependencies:
  - conda-forge::r-pbapply==1.4_2
  - conda-forge::r-stringr==1.4.0
  - conda-forge::r-readr==1.1.1
  - bioconda::bioconductor-rsamtools==1.34.0
  - conda-forge::gawk==5.1.0
  - bioconda::tabix==0.2.6
  - bioconda::bcftools==1.9=ha228f0b_4
  - bioconda::delly==0.8.3
  - bioconda::bioconductor-bsgenome.hsapiens.ucsc.hg19==1.4.0
  - bioconda::bioconductor-biovizbase==1.30.1
  - bioconda::vcftools==0.1.16
  - conda-forge::r-rmutil==1.1.4
  - bioconda::gatk4==4.1.7.0
  - conda-forge::r-lattice==0.20_41
  - conda-forge::r-reshape==0.8.8
  - bioconda::vardict-java==1.7.0
  - bioconda::manta==1.6.0
  - bioconda::bwa==0.7.17
  - conda-forge::r-data.table==1.12.8
  - conda-forge::r-plyr==1.8.4
  - bioconda::samtools==1.9=h8571acd_11
  - bioconda::strelka==2.9.10
  - bioconda::bioconductor-variantannotation==1.28.3
  - bioconda::pindel==0.2.5b9
  - bioconda::macs2==2.1.2
  - conda-forge::r-dplyr==0.8.5
  - bioconda::bioconductor-genomicalignments==1.18.1
  - bioconda::bedtools==2.29.2
  - bioconda::varscan==2.4.4
  - bioconda::bioconductor-rtracklayer==1.42.1
  - conda-forge::coreutils==8.31
  - conda-forge::sed==4.8
  - conda-forge::bash==5.0.018
  - conda-forge::gzip==1.10