channels:

  - conda-forge

  - bioconda

dependencies:

  # specify minimum compilers

  # not sure why 7.3 is getting installed

  - gcc_impl_linux-64 >=7.5

  - gxx_impl_linux-64 >=7.5

  - r-base=4.1.3

  - r-irkernel

  - r-biocmanager

  # copy biocmanager install from README

  - bioconductor-SingleCellExperiment

  - bioconductor-tscan

  - r-boot

  - r-httr

  - r-mclust

  - r-statmod

  - r-igraph

  - r-rweka

  # - r-philentropy not on conda-forge or bioconda

  # - r-netindices

  - r-png

  # r-grdevices not on conda

  - r-readr

  - r-rcolorbrewer

  - r-ggplot2

  - r-rpart

  - r-fpc

  - r-cluster

  - r-rpart.plot

  - r-tsne

  - bioconductor-annotationdbi

  - bioconductor-org.hs.eg.db

  # graphics, stats, utils are part of core

  # - bioconductor-impute >=1.62 # impute build isn't compatible with 4.0.3 yet

  - r-enrichr

  # additional unlisted dependencies

  - r-partykit

  # latest additions

  - bioconductor-summarizedexperiment

  - bioconductor-multiassayexperiment

  - bioconductor-m3drop

  - r-leiden

  - r-reticulate

  # latest Python additions

  - leidenalg

  - numpy

  - pandas

  - python-igraph

  # additional dependencies for packages not found on conda

  - r-dplyr

  - bioconductor-biocversion