recipe t_coffee

A collection of tools for Multiple Alignments of DNA, RNA, Protein Sequence

Homepage:

http://www.tcoffee.org/Projects/tcoffee/

License:

GPL-2.0-only

Recipe:

/t_coffee/meta.yaml

Links:

doi: 10.1006/jmbi.2000.4042

package t-coffee

versions:

13.46.0.919e8c6b-0,  13.45.0.4846264-7,  13.45.0.4846264-6,  13.45.0.4846264-5,  13.45.0.4846264-4,  13.45.0.4846264-3,  13.45.0.4846264-2,  13.45.0.4846264-1,  13.45.0.4846264-0, 

13.46.0.919e8c6b-0,  13.45.0.4846264-7,  13.45.0.4846264-6,  13.45.0.4846264-5,  13.45.0.4846264-4,  13.45.0.4846264-3,  13.45.0.4846264-2,  13.45.0.4846264-1,  13.45.0.4846264-0,  13.39.0.d675aed-2,  13.39.0.d675aed-1,  13.39.0.d675aed-0,  12.00.7fb08c2-2,  12.00.7fb08c2-1,  12.00.7fb08c2-0,  11.00.8cbe486-0

depends blast:

depends clustalo:

depends clustalw:

depends consan:

depends dca:

depends dialign-tx:

1.0.2.*

depends famsa:

depends kalign2:

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends mafft:

7.310.*

depends muscle:

depends mustang:

3.2.3.*

depends pasta:

depends perl:

depends phylip:

depends poa:

2.0.*

depends prank:

depends probcons:

depends probconsrna:

depends ruby:

depends sap:

depends tmalign:

depends viennarna:

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 t-coffee

and update with::

   mamba update t-coffee

To create a new environment, run:

mamba create --name myenvname t-coffee

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/t-coffee:<tag>

(see `t-coffee/tags`_ for valid values for ``<tag>``)

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