recipe pm4ngs

PM4NGS generates a standard organizational structure for Next Generation Sequencing (ngs) data analysis

Homepage:

https://pypi.org/project/pm4ngs/

Developer docs:

https://github.com/ncbi/pm4ngs

License:

PUBLIC-DOMAIN / Public Domain

Recipe:

/pm4ngs/meta.yaml

package pm4ngs

versions:

0.0.21-0,  0.0.20-0,  0.0.19-0,  0.0.18-0,  0.0.17-0,  0.0.16-0,  0.0.15-0,  0.0.14-0,  0.0.13-0, 

0.0.21-0,  0.0.20-0,  0.0.19-0,  0.0.18-0,  0.0.17-0,  0.0.16-0,  0.0.15-0,  0.0.14-0,  0.0.13-0,  0.0.12-0,  0.0.11-0,  0.0.9-0,  0.0.8-0,  0.0.7-0,  0.0.6-0,  0.0.5-0,  0.0.4-0,  0.0.3-0,  0.0.1-0

depends bioconda2biocontainer:

depends biopython:

depends cookiecutter:

depends cwltool:

depends docker-py:

depends galaxy-tool-util:

depends gitpython:

depends goenrichment:

depends jupyter:

depends matplotlib-base:

depends networkx:

depends numpy:

depends pandas:

depends pdf2image:

depends poppler:

depends python:

>=3.7

depends pyyaml:

depends requests:

depends scipy:

depends seaborn:

depends statsmodels:

depends urllib3:

depends xmltodict:

requirements:

additional platforms:

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 pm4ngs

and update with::

   mamba update pm4ngs

To create a new environment, run:

mamba create --name myenvname pm4ngs

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/pm4ngs:<tag>

(see `pm4ngs/tags`_ for valid values for ``<tag>``)

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