11 projects
runHiC
A easy-to-use Hi-C processing software supporting distributed computation
hicpeaks
A Python implementation for BH-FDR and HiCCUPS
peakachu
A supervised learning framework for chromatin loop detection in genome-wide contact maps.
neoloop
Predict neo-loops induced by structural variations
eaglec
A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps
HiCLift
Convert genomic coordinates of contact pairs from one assembly to another.
pairLiftOver
Convert genomic coordinates of contact pairs from one assembly to another.
TADLib
A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
domaincaller
A python implementation of original DI-based domain caller proposed by Dixon et al. (2012)
stripecaller
Automated Stripe Identification from contact matrix.
calTADs
A hierarchical domain caller for Hi-C data based on a modified version of Directionality Index
