recipe astalavista

AStalavista is a computer program to extract alternative splicing (AS) events from a given genomic annotation of exon-intron gene coordinates. By comparing all given transcripts, AStalavista detects the variations in their splicing structure and identify all AS events (like exon skipping, alternate donor, etc) by assigning to each of them an AS code.

Homepage:

http://sammeth.net/confluence/display/ASTA/Home

License:

BSD

Recipe:

/astalavista/meta.yaml

Links:

biotools: astalavista, doi: 10.1101/gr.121947.111

package astalavista

(downloads) docker_astalavista

versions:

4.0-1,  4.0-0,  3.2-0

depends openjdk:

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 astalavista

and update with::

   mamba update astalavista

To create a new environment, run:

mamba create --name myenvname astalavista

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/astalavista:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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