DISCOVER co-occurrence and mutual exclusivity analysis for cancer genomics data

A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.

A modular annotation tool for genomic variants

dN/dS methods to quantify selection in cancer and somatic evolution

Framework for Metastatic And Clonal History INtegrative Analysis

DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell fractions (DCF).

Tensors and Dynamic neural networks in Python with strong GPU acceleration

Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms

Annotates variants in MAF with OncoKB annotation.