Genomics software

GenomeVIP: a cloud platform for genomic variant discovery and interpretation. [GitHub]

CharGer: Clinical Characterization of Germline Variants. [GitHub]

AeQTL: eQTL analysis using region-based aggregation of rare variants. [GitHub]

LOHfinder: Identify germline variants undergoing LOH, used in: Pathogenic Germline Variants in 10,389 Adult Cancers. [GitHub]

Proteomics software

OPPTI: Pan-cancer Proteogenomic Investigations Identify Post-Transcriptional Kinase Targets [GitHub]

HotPho: Systematic discovery of spatially interacting phosphorylation sites and mutations in cancer. [GitHub for software][GitHub for analysis scripts]

KinS: Regulated phosphosignaling associated with breast cancer subtypes and druggability. [GitHub]