BEDTools: The Swiss-Army Tool for Genome Feature Analysis.
September 8, 2014
SubcloneSeeker: a computational framework for reconstructing tumor clone structure for cancer variant interpretation and prioritization.
August 26, 2014
LUMPY: a probabilistic framework for structural variant discovery.
June 26, 2014
A unified test of linkage analysis and rare-variant association for analysis of pedigree sequence data.
May 18, 2014
Phevor combines multiple biomedical ontologies for accurate identification of disease-causing alleles in single individuals and small nuclear families.
April 3, 2014
MOSAIK: a hash-based algorithm for accurate next-generation sequencing short-read mapping.
March 5, 2014
GEMINI: integrative exploration of genetic variation and genome annotations.
July 18, 2013
VAAST 2.0: improved variant classification and disease-gene identification using a conservation-controlled amino acid substitution matrix.
July 8, 2013
ImagePlane: an automated image analysis pipeline for high-throughput screens using the planarian Schmidtea mediterranea.
July 3, 2013
Scotty: a web tool for designing RNA-Seq experiments to measure differential gene expression.
March 1, 2013
Binary Interval Search: a scalable algorithm for counting interval intersections.
November 4, 2012
MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects
December 22, 2011
VAAST – A probabilistic disease-gene finder for personal genomes.
September 21, 2011
The variant call format and VCFtools
August 1, 2011
BamTools: a C++ API and toolkit for analyzing and managing BAM files
April 14, 2011