recipe transrate

Reference free quality assessment of de-novo transcriptome assemblies

Homepage:

https://github.com/blahah/transrate/

License:

MIT

Recipe:

/transrate/meta.yaml

Links:

doi: 10.1101/gr.196469.115

package transrate

(downloads) docker_transrate

versions:

1.0.3-5,  1.0.3-4,  1.0.3-3,  1.0.3-2,  1.0.3-1,  1.0.3-0

depends blast:

2.2.31.*

depends boost:

1.60.*

depends libgcc-ng:

>=12

depends rb-bundler:

depends ruby:

>=2

depends ruby:

>=2.5.7,<2.6.0a0

depends salmon:

0.6.0.*

depends snap-aligner:

1.0dev.96.*

depends transrate-tools:

1.0.0.*

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 transrate

and update with::

   mamba update transrate

To create a new environment, run:

mamba create --name myenvname transrate

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/transrate:<tag>

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

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Link to this page

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

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/transrate/README.html)