recipe cogent3

COmparative GENomics Toolkit 3: genomic sequence analysis within notebooks or on compute systems with 1000s of CPUs.

Homepage:

https://github.com/cogent3/cogent3

Documentation:

https://github.com/cogent3/cogent3/blob/2024.7.19a8/README.md

License:

BSD / BSD-3-Clause

Recipe:

/cogent3/meta.yaml

package cogent3

(downloads) docker_cogent3

versions:
2024.7.19a8-0,  2024.7.19a7-0,  2024.7.19a6-0,  2024.7.19a5-0,  2024.7.19a4-0,  2024.7.19a3-0,  2024.7.19a1-0,  2024.5.7a1-0,  2024.2.5a1-0, 

2024.7.19a8-0,  2024.7.19a7-0,  2024.7.19a6-0,  2024.7.19a5-0,  2024.7.19a4-0,  2024.7.19a3-0,  2024.7.19a1-0,  2024.5.7a1-0,  2024.2.5a1-0,  2023.12.15a1-0,  2023.9.22a1-0,  2023.7.18a1-0,  2022.8.24a1-0

depends chardet:

depends charset-normalizer:

depends loky:

depends numba:

>0.53.0

depends numpy:

depends python:

>=3.9,<3.13

depends scipy:

depends scitrack:

depends stevedore:

depends tinydb:

depends tqdm:

depends typing_extensions:

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 cogent3

and update with::

   mamba update cogent3

To create a new environment, run:

mamba create --name myenvname cogent3

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/cogent3:<tag>

(see `cogent3/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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