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:

13.46.1.b8b01e06-0,  13.46.0.919e8c6b-4,  13.46.0.919e8c6b-3,  13.46.0.919e8c6b-2,  13.46.0.919e8c6b-1,  13.46.0.919e8c6b-0,  13.45.0.4846264-7,  13.45.0.4846264-6,  13.45.0.4846264-5, 

13.46.1.b8b01e06-0,  13.46.0.919e8c6b-4,  13.46.0.919e8c6b-3,  13.46.0.919e8c6b-2,  13.46.0.919e8c6b-1,  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 clustalo:

1.2.4

depends clustalw:

2.1

depends consan:

1.2

depends dialign-tx:

>=1.0.2

depends famsa:

2.2.3

depends kalign2:

2.04

depends libgcc:

>=13

depends libgfortran:

depends libgfortran5:

>=13.3.0

depends libstdcxx:

>=13

depends mafft:

7.526

depends muscle:

3.8.1551

depends mustang:

>=3.2.3

depends pasta:

1.9.2

depends perl:

5.32.1

depends phylip:

3.697

depends poa:

>=2.0

depends prank:

170427

depends probcons:

1.12

depends probconsrna:

1.10

depends sap:

1.1.3

depends tmalign:

20170708

depends viennarna:

2.7.0

requirements:

additional platforms:

linux-aarch64

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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