recipe r-htscluster

A Poisson mixture model is implemented to cluster genes from high- throughput transcriptome sequencing (RNA-seq) data. Parameter estimation is performed using either the EM or CEM algorithm, and the slope heuristics are used for model selection (i.e., to choose the number of clusters).



GPL3 / GPL (>= 3)



package r-htscluster

(downloads) docker_r-htscluster



depends bioconductor-edger:

depends r-base:


depends r-capushe:

depends r-plotrix:



You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install r-htscluster

and update with::

   mamba update r-htscluster

To create a new environment, run:

mamba create --name myenvname r-htscluster

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull<tag>

(see `r-htscluster/tags`_ for valid values for ``<tag>``)

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