@article {Gaffney067090, author = {Stephen G. Gaffney and Jeffrey P. Townsend}, title = {PathScore: a web tool for identifying altered pathways in cancer data}, elocation-id = {067090}, year = {2016}, doi = {10.1101/067090}, publisher = {Cold Spring Harbor Laboratory}, abstract = {Summary PathScore quantifies the level of enrichment of somatic mutations within curated pathways, applying a novel approach that identifies pathways enriched across patients. The application provides several user-friendly, interactive graphic interfaces for data exploration, including tools for comparing pathway effect sizes, significance, gene-set overlap and enrichment differences between projects.Availability and Implementation Web application available at pathscore.publichealth.yale.edu. Site implemented in Python and MySQL, with all major browsers supported. Source code available at github.com/sggaffney/pathscore with a GPLv3 license.Contact stephen.gaffney{at}yale.eduSupplementary Information Additional documentation can be found at http://pathscore.publichealth.yale.edu/faq.}, URL = {https://www.biorxiv.org/content/early/2016/08/01/067090}, eprint = {https://www.biorxiv.org/content/early/2016/08/01/067090.full.pdf}, journal = {bioRxiv} }