General purpose stuff to generate and handle Hi-C data in its simplest form.

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License: GNU General Public License v3 (GPLv3) (GPLv3)

Author: lyam.baudry@pasteur.fr

Requires: Python >=3.4

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Project description

hicstuff

PyPI version PyPI - Python Version Read the docs License: GPLv3 Code style: black

A lightweight library that generates and handles Hi-C contact maps in either CSV or instaGRAAL format.

Installation

   pip3 install hicstuff

Usage

Contact map generation

    yahcp -1 reads_forward.fastq -2 reads_reverse.fastq -f genome.fa [-s size] [-o output_directory] [-e enzyme] [-q quality_min] [--duplicates] [--clean-up]

See yahcp for more information.

Contact map visualization

    vizmap -h

Library

See the documentation on reathedocs.

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Avatar for AmauryB from gravatar.com AmauryB Avatar for baudrly from gravatar.com baudrly Avatar for cmdoret from gravatar.com cmdoret Avatar for koszullab from gravatar.com koszullab Avatar for TheoFR from gravatar.com TheoFR

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License: GNU General Public License v3 (GPLv3) (GPLv3)

Author: lyam.baudry@pasteur.fr

Requires: Python >=3.4

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