recipe soapsplice

We have developed a tool SOAPsplice for genome-wide ab initio detection of splice junction sites from RNA-Seq, a method using new generation sequencing technologies to sequence the messenger RNA.

Homepage:

http://soap.genomics.org.cn/soapsplice.html

License:

freely available

Recipe:

/soapsplice/meta.yaml

Links:

biotools: SOAPsplice, doi: 10.3389/fgene.2011.00046

package soapsplice

(downloads) docker_soapsplice

versions:

1.10-3,  1.10-2,  1.10-1,  1.10-0

depends zlib:

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 soapsplice

and update with::

   mamba update soapsplice

To create a new environment, run:

mamba create --name myenvname soapsplice

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/soapsplice:<tag>

(see `soapsplice/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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