Bioconda version of R package available

[mfansler]

We have merged a Bioconda recipe for the R version of BPCells under the package name r-bpcells. It is now available through the bioconda channel.

Usage

Whenever using bioconda channel one must always have conda-forge set to a higher priority. For basic ad hoc installation, one can use the command:

Minimal install

conda install -c conda-forge -c bioconda r-bpcells

However, typical usage will likely want Suggests packages as well. I would strongly recommend using a dedicated environment. An ad hoc command would look something like:

Fuller install

conda create -n bpcells_r44 -c conda-forge -c bioconda \
  r-base=4.4 \
  r-bpcells \
  bioconductor-genomicranges \
  bioconductor-iranges \
  r-igraph \
  r-matrixstats \
  r-rspectra \
  macs3

Even better practice is to use a YAML to define the environment:

bpcells_0_3_0.yaml

name: bpcells_0_3_0
channels:
  - conda-forge
  - bioconda
  - nodefaults
dependencies:
  - r-base=4.4
  - r-bpcells=0.3.0
  - bioconductor-genomicranges
  - bioconductor-iranges
  - r-igraph
  - r-matrixstats
  - r-rspectra
  - macs3

Install command

conda env create -n bpcells_0_3_0 -f bpcells_0_3_0.yaml

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Please feel free to post Issues with the Bioconda package on https://github.com/bioconda/bioconda-recipes/issues and don't hesitate to ping me.