recipe stripepy-hic

StripePy recognizes architectural stripes in 3C and Hi-C contact maps using geometric reasoning

Homepage:

https://github.com/paulsengroup/StripePy

Documentation:

https://github.com/paulsengroup/StripePy/blob/main/README.md

License:

MIT

Recipe:

/stripepy-hic/meta.yaml

Links:

biotools: stripepy-hic, doi: 10.5281/zenodo.14394041

package stripepy-hic

versions:

0.0.2-0

depends h5py:

>=3

depends hictkpy:

>=1

depends matplotlib-base:

>=3.8

depends numpy:

depends pandas:

>=2

depends python:

depends scikit-learn:

depends scipy:

depends seaborn-base:

>=0.13

requirements:

additional platforms:

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 stripepy-hic

and update with::

   mamba update stripepy-hic

To create a new environment, run:

mamba create --name myenvname stripepy-hic

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/stripepy-hic:<tag>

(see `stripepy-hic/tags`_ for valid values for ``<tag>``)

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