recipe cmseq

Set of utilities on sequences and BAM files

Homepage:

https://github.com/SegataLab/cmseq

License:

MIT License

Recipe:

/cmseq/meta.yaml

package cmseq

versions:

1.0.4-0,  1.0.2-0,  1.0-0

depends bcbio-gff:

depends biopython:

depends numpy:

depends pandas:

depends pysam:

depends python:

>=3

depends samtools:

>=1.0

depends scipy:

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 cmseq

and update with::

   mamba update cmseq

To create a new environment, run:

mamba create --name myenvname cmseq

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/cmseq:<tag>

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

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