SQANTI3.conda_env.yml

name: SQANTI3.env
channels:
  - conda-forge
  - bioconda
  - anaconda
  - r
  - defaults
dependencies:
  - bcbiogff
  - bedtools
  - biopython
  - bioconductor-noiseq
  - bioconductor-busparse
  - bx-python
  - cython
  - desalt
  - gffread
  - gmap
  - kallisto
  - minimap2
  - numpy
  - openssl
  - pandoc
  - perl
  - pip
  - psutil
  - pybedtools
  - pysam
  - python>=3.7.6
  - r>=3.6.0
  - r-biocmanager
  - r-caret
  - r-dplyr
  - r-dt
  - r-devtools
  - r-e1071
  - r-forcats
  - r-ggplot2
  - r-ggplotify
  - r-gridbase
  - r-gridextra
  - r-htmltools
  - r-jsonlite
  - r-optparse
  - r-plotly
  - r-plyr
  - r-pROC
  - r-purrr
  - r-rmarkdown
  - r-reshape
  - r-readr
  - r-randomForest
  - r-scales
  - r-stringi
  - r-stringr
  - r-tibble
  - r-tidyr
  - samtools
  - scipy
  - seqtk
  - star
  - slamem
  - pip:
    - ultra-bioinformatics