recipe bioconductor-chromheatmap

Heat map plotting by genome coordinate

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/ChromHeatMap.html

License:

Artistic-2.0

Recipe:

/bioconductor-chromheatmap/meta.yaml

Links:

biotools: chromheatmap, doi: 10.1038/nmeth.3252

The ChromHeatMap package can be used to plot genome-wide data (e.g. expression, CGH, SNP) along each strand of a given chromosome as a heat map. The generated heat map can be used to interactively identify probes and genes of interest.

package bioconductor-chromheatmap

versions:

1.56.0-0,  1.54.0-0,  1.52.0-0,  1.48.0-0,  1.46.0-0,  1.44.0-1,  1.44.0-0,  1.42.0-0,  1.40.0-0, 

1.56.0-0,  1.54.0-0,  1.52.0-0,  1.48.0-0,  1.46.0-0,  1.44.0-1,  1.44.0-0,  1.42.0-0,  1.40.0-0,  1.38.0-1,  1.36.0-0,  1.34.0-0,  1.32.0-0

depends bioconductor-annotate:

>=1.80.0,<1.81.0

depends bioconductor-annotationdbi:

>=1.64.0,<1.65.0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-biocgenerics:

>=0.48.0,<0.49.0

depends bioconductor-genomicranges:

>=1.54.0,<1.55.0

depends bioconductor-iranges:

>=2.36.0,<2.37.0

depends bioconductor-rtracklayer:

>=1.62.0,<1.63.0

depends r-base:

>=4.3,<4.4.0a0

requirements:

Installation

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-chromheatmap

and update with::

   mamba update bioconductor-chromheatmap

To create a new environment, run:

mamba create --name myenvname bioconductor-chromheatmap

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 quay.io/biocontainers/bioconductor-chromheatmap:<tag>

(see `bioconductor-chromheatmap/tags`_ for valid values for ``<tag>``)

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