recipe pygtftk

The gtftk suite providing facilities to manipulate genomic annotations in gtf format.

Homepage:

http://github.com/dputhier/pygtftk

License:

MIT

Recipe:

/pygtftk/meta.yaml

package pygtftk

versions:

1.6.2-2,  1.6.2-1,  1.6.2-0,  1.6.1-0,  1.6.0-0,  1.5.3-1,  1.5.3-0,  1.5.1-0,  1.5.0-0, 

1.6.2-2,  1.6.2-1,  1.6.2-0,  1.6.1-0,  1.6.0-0,  1.5.3-1,  1.5.3-0,  1.5.1-0,  1.5.0-0,  1.4.0-0,  1.3.0-0,  1.2.7-2,  1.2.7-1,  1.2.7-0,  1.2.6-0,  1.2.5-0,  1.2.4-0,  1.2.2-0,  1.2.0-0,  1.1.4-2,  1.1.4-1,  1.1.4-0,  1.1.2-0,  1.1.1-0,  1.1.0-0,  1.0.9-0,  1.0.7-0,  1.0.6-0,  1.0.5-0,  1.0.2-0,  1.0.1-0

depends bedtools:

>=2.23.1

depends billiard:

>=3.6.4.0

depends biopython:

>=1.69

depends bzip2:

depends cffi:

>=1.10.0

depends cloudpickle:

>=0.4.0

depends ftputil:

>=3.3.1,<4.0.0

depends future:

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

depends matplotlib-base:

>=2.0.2

depends mpmath:

>=1.1.0

depends nose:

depends numpy:

>=1.15.3

depends numpy:

>=1.26.4,<2.0a0

depends openblas:

>=0.3.17

depends pandas:

>=0.23.3

depends plotnine:

>=0.4.0

depends pybedtools:

>=0.7.8

depends pybigwig:

>=0.3.12

depends pyparsing:

>=2.2.0

depends python:

>=3.9,<3.10.0a0

depends python-graphviz:

depends python_abi:

3.9.* *_cp39

depends pyyaml:

>=3.12

depends requests:

>=2.13.0

depends scikit-learn:

>=0.21.2,<1

depends scipy:

>=1.1.0

depends seaborn:

depends xz:

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 pygtftk

and update with::

   mamba update pygtftk

To create a new environment, run:

mamba create --name myenvname pygtftk

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/pygtftk:<tag>

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

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