Romain Koszul Laboratory

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Institut Pasteur, Paris
https://research.pasteur.fr/en/team/spatial-regulation-of-genomes/

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instaGRAALinstaGRAALPublic
Large genome reassembly based on Hi-C data, continuation of GRAAL
Cuda 40 9
metaTORmetaTORPublic
Metagenomic binning based on Hi-C data
Python 26 9
hicstuffhicstuffPublic
Forked frombaudrly/hicstuff
Simple library/pipeline to generate and handle Hi-C data.
Python 37 7
chromosightchromosightPublic
Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
Python 63 10
serpentineserpentinePublic
Local, normalization-free contact map binning
Python 5 3

Repositories

Showing 10 of 19 repositories

metaTOR Public
Metagenomic binning based on Hi-C data
koszullab/metaTOR’s past year of commit activity
Python 26GPL-3.0 9 2 0 UpdatedMar 18, 2025
hicberg Public Forked fromsebgra/hicberg
Statistical profiling based program for contact (Hi-C) and pair ended genomic data reconstruction
koszullab/hicberg’s past year of commit activity
Python0 1 0 0 UpdatedDec 30, 2024
hicstuff Public Forked frombaudrly/hicstuff
Simple library/pipeline to generate and handle Hi-C data.
koszullab/hicstuff’s past year of commit activity
Python 37BSD-3-Clause 8 6 0 UpdatedNov 19, 2024
instaGRAAL Public
Large genome reassembly based on Hi-C data, continuation of GRAAL
koszullab/instaGRAAL’s past year of commit activity
Cuda 40GPL-3.0 9 9 0 UpdatedMar 20, 2024
HiContacts Public Forked fromjs2264/HiContacts
HiContacts: R interface to cool files and analysis of Hi-C contacts
koszullab/HiContacts’s past year of commit activity
R 1 1 0 0 UpdatedJan 27, 2024
chromosight_analyses_scripts Public
Codes used to perform analyses in the Chromosight publication
koszullab/chromosight_analyses_scripts’s past year of commit activity
Python 40 0 0 UpdatedNov 17, 2023
transcription_T7_analysis Public Forked fromABignaud/transcription_T7_analysis
In this repository, we present the code for the analysis of study of the transcription's impact on Escherichia coli chromosome.
koszullab/transcription_T7_analysis’s past year of commit activity
Python0BSD-3-Clause 1 0 0 UpdatedOct 1, 2023
bacchus Public Forked fromABignaud/bacchus
Tools for analysis of BACterial Chromosome HiC data. (BACCHUS)
koszullab/bacchus’s past year of commit activity
Python0BSD-3-Clause 2 0 0 UpdatedSep 4, 2023
chromosight Public
Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
koszullab/chromosight’s past year of commit activity
Python 63 10 4 0 UpdatedDec 16, 2022
GRAAL Public
(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)
koszullab/GRAAL’s past year of commit activity
Python 14 9 8 4 UpdatedNov 22, 2022