environment.yml

# You can use this file to create a conda environment for this pipeline:
#   conda env create -f environment.yml
name: nf-core-hic-2.0.0
channels:
  - conda-forge
  - bioconda
  - defaults
dependencies:
  - conda-forge::python=3.9.12=h9a8a25e_1_cpython
  - pip=22.0.4=pyhd8ed1ab_0
  - conda-forge::tbb=2020.2=hc9558a2_0
  - conda-forge::scipy=1.8.0=py39hee8e79c_1
  - conda-forge::numpy=1.22.3=py39hc58783e_2
  - bioconda::iced=0.5.10=py39h919a90d_1
  - bioconda::bx-python=0.8.13=py39h6471ffd_1
  - bioconda::pysam=0.19.0=py39h5030a8b_0
  - conda-forge::pymdown-extensions=7.1=pyh9f0ad1d_0
  - bioconda::cooler=0.8.11=pyh5e36f6f_1
  - bioconda::cooltools=0.5.1=py39h5371cbf_1
  - bioconda::bowtie2=2.4.5=py39hd2f7db1_2
  - bioconda::samtools=1.15.1=h1170115_0
  - bioconda::multiqc=1.12=pyhdfd78af_0
  - bioconda::fastqc=0.11.9=hdfd78af_1

  ## Dev tools
  - bioconda::hicexplorer=3.7.2=pyhdfd78af_1
  - bioconda::bioconductor-hitc=1.38.0=r41hdfd78af_0
  - conda-forge::r-optparse=1.7.1=r41hc72bb7e_0
  - bioconda::ucsc-bedgraphtobigwig=377=ha8a8165_3
  - conda-forge::cython=0.29.28=py39h5a03fae_2
  - pip:
      - fanc==0.9.23