recipe ataqv

ataqv is a toolkit for measuring and comparing ATAC-seq results. It was written to help understand how well ATAC-seq assays have worked, and to make it easier to spot differences that might be caused by library prep or sequencing.



Developer docs:





package ataqv

(downloads) docker_ataqv



depends boost-cpp:


depends coreutils:

depends htslib:


depends libgcc-ng:


depends libstdcxx-ng:


depends libzlib:


depends ncurses:


depends python:


depends python_abi:

3.10.* *_cp310

depends zlib:



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 ataqv

and update with::

   mamba update ataqv

To create a new environment, run:

mamba create --name myenvname ataqv

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

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