recipe pretextgraph

Embeds bedgraph data into Pretext contact maps.

Homepage:

https://github.com/wtsi-hpag/PretextGraph

License:

MIT / MIT

Recipe:

/pretextgraph/meta.yaml

This is a tool for converting data from a bedgraph format and embedding into a Hi-C contact map in the Pretext format. The graph data can then be displayed alongside the contact map using the PretextView desktop software (https://github.com/wtsi-hpag/PretextView). See https://github.com/wtsi-hpag/PretextMap for how to generate Pretext contact maps, or search for pretextmap on bioconda.

package pretextgraph

(downloads) docker_pretextgraph

versions:

0.0.7-0,  0.0.6-3,  0.0.6-2,  0.0.6-1,  0.0.6-0,  0.0.5-0,  0.0.4-0,  0.0.2-1,  0.0.2-0

depends libgcc:

>=12

depends libstdcxx:

>=12

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 pretextgraph

and update with::

   mamba update pretextgraph

To create a new environment, run:

mamba create --name myenvname pretextgraph

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/pretextgraph:<tag>

(see `pretextgraph/tags`_ for valid values for ``<tag>``)

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