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comut

CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots

fragcounter

GC and mappability corrected fragment coverage for paired end whole genome sequencing

ggnome

R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework

gtrack

R package for visualizing complex and multi-track 1D and 2D genomic data in GenomicRanges framework

hatchet

HATCHet (Holistic Allele-specific Tumor Copy-number Heterogeneity) is an algorithm that infers allele and clone-specific CNAs and WGDs jointly across multiple tumor samples from the same patient, and that leverages the relationships between clones in these samples.

jabba

MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.

neoloopfinder

A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes

toolkit_demos

demos for bioinformatic & AI toolkits

yelingqun.github.io