Pinned Repositories
bioframe
Genomic interval operations on Pandas DataFrames
cooler
A cool place to store your Hi-C
cooler-binder
Cooler demo using a Jupyter notebook Binder
coolpuppy
A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
cooltools
The tools for your .cool's
distiller-nf
A modular Hi-C mapping pipeline
open2c_examples
pairtools
Extract 3D contacts (.pairs) from sequencing alignments
polychrom
Chromosome polymer simulations and in silico capture experiments
quaich
snakemake pipeline for Hi-C post-processing
Open Chromosome Collective's Repositories
open2c/cooler
A cool place to store your Hi-C
open2c/bioframe
Genomic interval operations on Pandas DataFrames
open2c/cooltools
The tools for your .cool's
open2c/pairtools
Extract 3D contacts (.pairs) from sequencing alignments
open2c/distiller-nf
A modular Hi-C mapping pipeline
open2c/coolpuppy
A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
open2c/polychrom
Chromosome polymer simulations and in silico capture experiments
open2c/quaich
snakemake pipeline for Hi-C post-processing
open2c/cooler-binder
Cooler demo using a Jupyter notebook Binder
open2c/open2c_examples
open2c/looplib
A library to analyse the structure of 1d loops and simulate loop extrusion by loop extruding factors.
open2c/inspectro
Hi-C spectral analysis workflow
open2c/inspectro-nf
open2c/polychrom-hoomd
open2c/polykit
open2c/distiller-sm
a Snakemake version of distiller - the Open2C Hi-C mapping workflow
open2c/open2c_vignettes
A collection of notebooks and gists demonstrating novel applications of open2c ecosystem of tools
open2c/assemblyinfo
Genome assembly metadata
open2c/pairlib
Read, write and analyse Hi-C pairs
open2c/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
open2c/open2c.github.io
Welcome to the Open Chromosome Collective!
open2c/pairtools-1
CLI tools to process mapped Hi-C data
open2c/.github
open2c/bioframe-poster
https://open2c.github.io/bioframe-poster
open2c/distiller-test-data
Test data for distiller
open2c/gsoc
Google Summer of Code - Open2C
open2c/MultiQC_TestData
Test data for MultiQC. See https://github.com/ewels/MultiQC
open2c/pyfilesplit