recipe tin-score-calculation

Given a set of BAM files and a gene annotation BED file, calculates the Transcript Integrity Number (TIN) for each transcript.

Homepage:

The package home page

License:

GPL3 / GNU General Public License v3.0

Recipe:

/tin-score-calculation/meta.yaml

package tin-score-calculation

versions:

0.6.3-0,  0.6.2-0,  0.6.0-0,  0.5.1-0,  0.5-0,  0.4-0

depends bx-python:

>=0.8.10

depends guppy3:

>=3

depends matplotlib-base:

depends pandas:

>=0.25

depends psutil:

>=5.8.0

depends pysam:

>=0.16

depends python:

depends rseqc:

>=3

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 tin-score-calculation

and update with::

   mamba update tin-score-calculation

To create a new environment, run:

mamba create --name myenvname tin-score-calculation

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/tin-score-calculation:<tag>

(see `tin-score-calculation/tags`_ for valid values for ``<tag>``)

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