recipe perl-obogaf-parser

a perl5 module to handle obo and gaf file

Homepage:

http://metacpan.org/pod/obogaf::parser

Documentation:

https://obogaf-parser.readthedocs.io

Developer docs:

https://github.com/marconotaro/obogaf-parser

License:

perl_5

Recipe:

/perl-obogaf-parser/meta.yaml

[](https://obogaf-parser.readthedocs.io/en/latest/?badge=latest)

obogaf-parser is a perl5 module specifically designed to handle GO and HPO obo file and their gene annotation file (gaf). However, obogaf-parser can be safely used to parse any obo file listed in OBO foundry website and any gaf file structured as those shown in GOA and HPO website (i.e. a csv file using tab as separator).

package perl-obogaf-parser

versions:

1.373-2,  1.373-1,  1.373-0,  1.272-0,  1.271-0,  1.016-0

depends perl:

>=5.32.1,<6.0a0 *_perl5

depends perl-graph:

depends perl-list-moreutils:

depends perl-perlio-gzip:

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 perl-obogaf-parser

and update with::

   mamba update perl-obogaf-parser

To create a new environment, run:

mamba create --name myenvname perl-obogaf-parser

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/perl-obogaf-parser:<tag>

(see `perl-obogaf-parser/tags`_ for valid values for ``<tag>``)

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