open2c Goto Github PK

.github

bioframe

Genomic Interval Operations on Pandas DataFrames

bioframe-poster

https://open2c.github.io/bioframe-poster

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

distiller-sm

a Snakemake version of distiller

distiller-test-data

Test data for distiller

gsoc

Google Summer of Code - Open2C

inspectro

Hi-C spectral analysis workflow

inspectro-nf

looplib

A library to analyse the structure of 1d loops and simulate loop extrusion by loop extruding factors.

multiqc

Aggregate results from bioinformatics analyses across many samples into a single report.

multiqc_testdata

Test data for MultiQC. See https://github.com/ewels/MultiQC

open2c.github.io

Welcome to the Open Chromosome Collective!

open2c_examples

open2c_vignettes

A collection of notebooks and gists demonstrating novel applications of open2c ecosystem of tools

pairlib

Read, write and analyse Hi-C pairs

pairtools

flexible suite of CLI tools for contact extraction (.pairs) from sequencing data (Hi-C, Micro-C and other chromosome capture methods)

pairtools-1

CLI tools to process mapped Hi-C data

polychrom

Chromosome polymer simulations and in silico capture experiments

polychrom-hoomd

polykit

pyfilesplit

quaich

snakemake pipeline for Hi-C post-processing