recipe biocommons.seqrepo

Python package for writing and reading a local collection of biological sequences.



APACHE / Apache-2.0



package biocommons.seqrepo

(downloads) docker_biocommons.seqrepo



depends bioutils:


depends coloredlogs:

depends ipython:

depends pysam:

depends python:


depends requests:

depends requests-html:

depends six:

depends tqdm:

depends yoyo-migrations:



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 biocommons.seqrepo

and update with::

   mamba update biocommons.seqrepo

To create a new environment, run:

mamba create --name myenvname biocommons.seqrepo

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<tag>

(see `biocommons.seqrepo/tags`_ for valid values for ``<tag>``)

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