recipe tf-comb

Transcription Factor Co-Occurrence using Market Basket analysis

Homepage:

https://tf-comb.readthedocs.io/

Developer docs:

https://github.com/loosolab/TF-COMB/

License:

MIT / MIT

Recipe:

/tf-comb/meta.yaml

Links:

doi: 10.1016/j.csbj.2022.07.025

package tf-comb

versions:

1.1-0

depends dill:

depends goatools:

depends ipython:

depends libgcc-ng:

>=12

depends matplotlib-base:

>=2

depends networkx:

>=2.4

depends numpy:

>=1.21.6,<2.0a0

depends pandas:

depends pysam:

depends python:

>=3.10,<3.11.0a0

depends python-graphviz:

depends python-louvain:

depends python_abi:

3.10.* *_cp310

depends qnorm:

depends scipy:

depends seaborn:

depends statsmodels:

depends tobias:

>=0.11

depends tqdm:

depends uropa:

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 tf-comb

and update with::

   mamba update tf-comb

To create a new environment, run:

mamba create --name myenvname tf-comb

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/tf-comb:<tag>

(see `tf-comb/tags`_ for valid values for ``<tag>``)

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