recipe labrat

A package to quantify changes in alternative polyadenylation isoform abundance using RNAseq data

Homepage:

https://github.com/TaliaferroLab/LABRAT

License:

MIT / MIT

Recipe:

/labrat/meta.yaml

Links:

https: :https:`//bmcgenomics.biomedcentral.com/articles/10.1186/s12864-021-07781-1`

package labrat

versions:

0.3.0-1,  0.3.0-0,  0.2.2-0

depends biopython:

>=1.76

depends gffutils:

>=0.9

depends numpy:

>=1.15.4

depends pandas:

>=1.0

depends python:

>=3.6

depends salmon:

0.14.*

depends scipy:

>=1.3.0

depends statsmodels:

>=0.10

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 labrat

and update with::

   mamba update labrat

To create a new environment, run:

mamba create --name myenvname labrat

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/labrat:<tag>

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

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Link to this page

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