recipe bioconductor-demixt

Cell type-specific deconvolution of heterogeneous tumor samples with two or three components using expression data from RNAseq or microarray platforms






DeMixT is a software package that performs deconvolution on transcriptome data from a mixture of two or three components.

package bioconductor-demixt

(downloads) docker_bioconductor-demixt



depends bioconductor-dss:


depends bioconductor-summarizedexperiment:


depends bioconductor-sva:


depends libblas:


depends libgcc-ng:


depends liblapack:


depends libstdcxx-ng:


depends r-base:


depends r-base64enc:

depends r-dendextend:

depends r-ggplot2:

depends r-kernsmooth:

depends r-knitr:

depends r-matrixcalc:

depends r-matrixstats:

depends r-psych:

depends r-rcpp:


depends r-rmarkdown:

depends r-truncdist:



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 bioconductor-demixt

and update with::

   mamba update bioconductor-demixt

To create a new environment, run:

mamba create --name myenvname bioconductor-demixt

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 `bioconductor-demixt/tags`_ for valid values for ``<tag>``)

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