CIViC provides a knowledgebase and curation system for expert crowdsourcing the clinical interpretation of variants in cancer.
Malachi Griffith, Nicholas Spies, Kilannin Krysiak, Josh McMichael, Adam Coffman, Arpad Danos, Susanna Kiwala, Ben Ainscough, Erica Barnell, Alex Wagner, Zachary Skidmore, Robert Lesurf, Lee Trani, Avinash Ramu, Katie Campbell, Ajay Venigalla, Lana Sheta, Obi Griffith
A computational toolkit for aiding design of personalized cancer vaccines.
Susanna Kiwala, Huiming Xia, Megan Richters, Joshua McMichael, Christopher Miller, Jasreet Hundal, Yang-Yang Feng, Aaron Graubert, Alex Wollam, Amber Wollam, Connor Liu, Jason Walker, Obi Griffith, Malachi Griffith
DGIdb offers user-friendly browsing, searching, and filtering of information on drug-gene interactions and the druggable genome, mined from over thirty trusted sources.
Kelsy Cotto, Alex Wagner, Yang-Yang Feng, Susanna Kiwala, Adam Coffman, Gregory Spies, Alex Wollam, Nicholas Spies, Obi Griffith, Malachi Griffith
GenVisR is a bioconductor package designed to allow users to produce highly customizable publication quality graphics for genomic data primarily at the cohort level.
Zachary Skidmore, Alex Wagner, Katie Campbell, Kelsy Cotto, Jason Kunisaki, Obi Griffith, Malachi Griffith.
RegTools is a set of tools that integrate DNA-seq and RNA-seq data to help interpret mutations in a regulatory and splicing context.
Yang-Yang Feng, Avinash Ramu, Kelsy Cotto, Jason Kunisaki, Zachary Skidmore, Obi Griffith, Malachi Griffith
VAtools is a python package that includes several tools to annotate VCF files with data from other tools.
TrioMix is a software tool for detecting intrafamilial DNA contamination, chimerism, and uniparental disomy from sequencing family trios.
Chris Yoon, Obi Griffith, Malachi Griffith
An open resource for building custom capture panels that are transparently linked to clinical variant annotations.
Erica Barnell, Adam Waalkes, Kelsi Penewit, Katie Campbell, Zachary Skidmore, Colin Pritchard, Todd Fehniger, Ravindra Uppaluri, Ramaswamy Govindan, Malachi Griffith, Stephen Salipante, Obi Griffith
The Database of Curated Mutations (DoCM) is an open access resource that outlines literature supported somatic mutations that are clinically or biologically relevant.
Ben Ainscough, Malachi Griffith, Adam Coffman, Alex Wagner, Jason Kunisaki, Joshua McMichael, Obi Griffith
CIViCpy is designed to be an intuitive SDK and analysis toolkit for the Clinical Interpretations of Variants in Cancer (CIViC) knowledgebase.
Alex Wagner, Susanna Kiwala, Adam Coffman, Joshua McMichael, Kelsy Cotto, Thomas Mooney, Erica Barnell, Kilannin Krysiak, Arpad Danos, Jason Walker, Obi Griffith, Malachi Griffith