BoUnds of Time Till Expansion, a computational framework to investigate the SCNA arrival time in the somatic evolution toward the most recent common ancestor of tumor sample(s)

AVG sampler prototype

Metastasis formation model and data processing code

Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

C++ API & command-line toolkit for working with BAM data

🚧 Lightweight R Interface to igraph Network Analysis Library

Simulates genomes for multiple related clones in a heterogeneous tumour, along with a matched germline genome.

High performance WebGL genome visualization

Integer Linear Program for the Copy-Number Tree Problem

Software for inferring the copy-number profiles of tumor clones and their evolution from fractional copy numbers obtained from multi-sample bulk sequencing data.

🦀 Tumor growth simulation in C++/R

microsatellite instability detection using tumor only or paired tumor-normal data

Tumor-specimen suited RNA-seq Unified Pipeline