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Name: Romain Koszul Laboratory
Type: Organization
Location: Institut Pasteur, Paris
Blog: https://research.pasteur.fr/en/team/spatial-regulation-of-genomes/
Name: Romain Koszul Laboratory
Type: Organization
Location: Institut Pasteur, Paris
Blog: https://research.pasteur.fr/en/team/spatial-regulation-of-genomes/
Step by step command-line tutorial to process Hi-C data
Tools for analysis of BACterial Chromosome HiC data. (BACCHUS)
Identification of centromere from chromosomal contact maps Marie-Nelly, Marbouty et al., Bioinformatics, 2014
Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
Codes used to perform analyses in the Chromosight publication
Relates to the article by Lioy, Cournac et al., Cell, 2018 (Functional partitioning of a bacterial chromosome through the interplay of nucleoid- associated proteins and the condensin MukBEF)
Scripts and materials needed to reproduce results and figures in the instaGRAAL showcase paper
(check out instaGRAAL for a faster, updated program!) This program is from Marie-Nelly et al., Nature Communications, 2014 (High-quality genome assembly using chromosomal contact data), also Marie-Nelly et al., 2013, PhD thesis (https://www.theses.fr/2013PA066714)
GUI-based pipeline for Hi-C data processing and visualization
HiContacts: R interface to cool files and analysis of Hi-C contacts
Simple library/pipeline to generate and handle Hi-C data.
Large genome reassembly based on Hi-C data, continuation of GRAAL
Metagenomic binning based on Hi-C data
Multi-sample change detection in Hi-C patterns
Local, normalization-free contact map binning
In this repository, we present the code for the analysis of study of the transcription's impact on Escherichia coli chromosome.
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