recipe nucleoatac

Python package for calling nucleosomes using ATAC-Seq data. Also includes general scripts for working with paired-end ATAC-Seq data (or potentially other paired-end data).

Homepage:

https://github.com/GreenleafLab/NucleoATAC

Documentation:

http://nucleoatac.readthedocs.io/en/latest/

License:

MIT / MIT

Recipe:

/nucleoatac/meta.yaml

Links:

doi: 10.1101/gr.192294.115

package nucleoatac

versions:

0.3.4-7,  0.3.4-6,  0.3.4-5,  0.3.4-4,  0.3.4-3,  0.3.4-2,  0.3.4-1,  0.3.4-0,  0.3.1-0

depends htslib:

>=1.14,<1.22.0a0

depends libgcc-ng:

>=10.3.0

depends libzlib:

>=1.2.11,<1.3.0a0

depends matplotlib-base:

depends numpy:

>=1.16.5,<2.0a0

depends pysam:

>=0.10.0

depends python:

>=2.7,<2.8.0a0

depends python_abi:

2.7.* *_cp27mu

depends scipy:

depends zlib:

>=1.2.11,<1.3.0a0

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 nucleoatac

and update with::

   mamba update nucleoatac

To create a new environment, run:

mamba create --name myenvname nucleoatac

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/nucleoatac:<tag>

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

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