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3dchromatin_replicateqc

Software to compute reproducibility and quality scores for Hi-C data

basenji

Sequential regulatory activity predictions with deep convolutional neural networks.

bioconda-recipes

Conda recipes for the bioconda channel.

bone101

Web-hosted documentation on BeagleBone enhanced with BoneScript and live-running tutorials

chromatin_3d

class-ibs-796-fall2013-playground

cloudresourcemanager

comp_calling

cooler

A cool place to store your Hi-C

coursera-test

galaxy

Data intensive science for everyone.

galaxy-master

galaxy-mrheatmap

Multi-resolution heatmap as a Galaxy visualization.

galaxy_toolhelper

genomedisco

Software for comparing contact maps from HiC, CaptureC and other 3D genome data.

hifive

Tools for handling HiC and 5C data

higlass

Fast contact matrix visualization for the web.

higlass-docker

Builds a docker container wrapping higlass-server and higlass-client in nginx

higlass-server

higlass_galaxy_ie

A HiGlass interactive environment for Galaxy

ideas

Jointly characterizing epigenetic dynamics across multiple cell types

interaction_hub

Database tools for analysis of all HiC data. Period.

kmc

Fast and frugal disk based k-mer counter

ladetector

LADetector package and scripts

minuniquekmer

Program for calculating the minimum unique k-mer values, both left- and right-anchored for a set of fasta sequences

misha-package

Git version of Tanaylab misha-package bitbucket repo

mrheatmap

multiresolution_heatmapping

nuc_dynamics

Particle dynamics and simulated annealing for chromosome structure calculation

pybigwig

A python extension for quick access to bigWig and bigBed files