Genome Institute Software
- BLASTaid – A simple interface for byte indexing a WU-BLAST multi-part report for faster access.
- BreakDancer – WashU structural variant (SV) detection algorithm for paired-end data.
- CMDS – WashU algorithm for identifying recurrent DNA copy number changes.
- cnvHMM – WashU copy number variant (CNV) detection algorithm for Illumina/Solexa data.
- ComComb – WashU algorithm for identifying common combinations of mutations across tumor types.
- EXOR – Filters mutually exclusive alignment events and defines a position-specific reciprocal best alignment set.
- FASTAParse – A light-weight parsing module for handling FASTA formatted sequence within larger perl applications.
- Gen Bell – Calculates Bell’s polynomials.
- GSTAT – WashU analysis tools
- Miropeats – Displays DNA sequence similarity information graphically.
- MuSiC – The MuSiC suite is a set of tools aimed at determining the significance of somatic mutations discovered within a given cohort of cancer samples, incorporating the cohort's alignment data, variant lists and any relevant clinical data.
- Overgo Maker – Output overgo sequences ready for ordering from a fasta input file.
- Pairoscope – WashU tool for visualizing SVs from Illumina/Solexa paired-end reads.
- PathScan – WashU algorithm that assesses significance of gene groups by Boolean tagging each gene as mutated or not mutated.
- Pathway Tools – WashU annotation tools.
- PolyScan – Automatic indel and SNP detection to the analysis of human re-sequencing data.
- R Functions for Correlation Analysis – Some of the functions we use with R.
- Semblance – Assess a genome assembly by comparison to finished clones.
- SomaticSniper – WashU somatic SNV detection algorithm for whole genome resequencing data.
- SWT – WashU Sliding Window Tool for detecting copy number variants from Illumina/Solexa data.
- TIGRA_SV – Tigra_sv is a program that conducts targeted local assembly of structural variation (SV) using the iterative graph routing assembly (TIGRA) algorithm.
- UR – A Class Framework and Object/ Relational Mapper (ORM) for Perl.
- VarScan – Somatic and germline variant detection for massively parallel sequencing
