environment.yml

name: chipseq
channels:
  - conda-forge
  - bioconda
  - defaults
dependencies:
  - bioconda::bedtools=2.30.0=h468198e_3
  - bioconda::bowtie2=2.4.2=py39hc9c6fcd_2
  - conda-forge::tbb=2020.2=hc9558a2_0
  - bioconda::bwa=0.7.17=h7132678_9
  - bioconda::deeptools=3.5.1=py_0
  - conda-forge::numpy=1.23.1=py39hba7629e_0
  - bioconda::epic2=0.0.52=py39hbec504a_4
  - bioconda::fastqc=0.11.9=hdfd78af_1
  - bioconda::trim-galore=0.6.7=hdfd78af_0
  - bioconda::homer=4.11=pl5321h9f5acd7_7
  - bioconda::idr=2.0.4.2=py39h5371cbf_7
  - bioconda::macs2=2.2.7.1=py39hbf8eff0_5
  - bioconda::multiqc=1.11=pyhdfd78af_0
  - bioconda::picard=2.27.4=hdfd78af_0
  - bioconda::preseq=3.2.0=h867801b_3
  - bioconda::pysam=0.20.0=py39h9abd093_0
  - bioconda::samtools=1.15.1=h6899075_1
  - bioconda::star=2.7.6a=0
  - bioconda::subread=2.0.1=h5bf99c6_1
  - bioconda::phantompeakqualtools=1.2.2=hdfd78af_1
  - conda-forge::gawk=5.1.0=h516909a_0
  - conda-forge::pymdown-extensions=7.1=pyh9f0ad1d_0
  - conda-forge::python=3.9.15=h47a2c10_0_cpython
  - conda-forge::r-base=4.2.1=ha8c3e7c_1
  - bioconda::bioconductor-deseq2=1.38.0=r42hc247a5b_0
  - conda-forge::r-ggplot2=3.4.0=r42hc72bb7e_1
  - conda-forge::r-optparse=1.7.3=r42hc72bb7e_1
  - conda-forge::r-reshape2=1.4.4=r42h7525677_2
  - conda-forge::r-scales=1.2.1=r42hc72bb7e_1