recipe samsum

A light-weight python package for summarizing sequence coverage from SAM and BAM files



GPL3 / GNU General Public v3 (GPLv3)



package samsum

(downloads) docker_samsum



depends libgcc-ng:


depends libstdcxx-ng:


depends numpy:


depends pyfastx:

depends pytest:

depends python:


depends python_abi:

3.10.* *_cp310



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 samsum

and update with::

   mamba update samsum

To create a new environment, run:

mamba create --name myenvname samsum

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 `samsum/tags`_ for valid values for ``<tag>``)

Download stats