FASD
Lead Investigator(s) Raul Rabadan
Frequency Analysis of Sequence Data (FASD)
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FeatureREDUCE
Lead Investigator(s) Harmen Bussemaker
Quantifies relative protein-NA binding affinities using sequence and structural features.
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FIRE
Lead Investigator(s) Saeed Tavazoie
A motif discovery and characterization program based on mutual information.
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FIRE-pro
Lead Investigator(s) Saeed Tavazoie
A motif discovery and characterization program for proteins based on mutual information.
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GAMToC
Lead Investigator(s) Raul Rabadan
Uses copy number and mutation data from a cohort of patients, for example from TCGA, to find modules of genes with a related mutation pattern.
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Genatomy
Lead Investigator(s) Dana Pe'er
A visualization tool for biological data related to gene expression, genotypes, growth curves, and copy number variation.
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Germline
Lead Investigator(s) Itsik Pe'er
An algorithm for discovering long shared segments of identity by descent (IBD) between pairs of (unrelated) individuals in a large population.
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geWorkbench
Lead Investigator(s) Aris Floratos
Provides an integrated suite of genomics tools.
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GRASP
Lead Investigator(s) Anthony Nicholls, Barry Honig
A molecular visualization and analysis program useful for displaying and manipulating the surfaces of molecules and their electrostatic properties.
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GRASP2
Lead Investigator(s) Donald Petrey, Barry Honig
An updated version of the GRASP program used for macromolecular structure and surface visualization.
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GRASS
Lead Investigator(s) Barry Honig
A web-based server that exploits many of the features of the GRASP program, providing interactive molecular graphics and quantitative analysis tools with a simple web-based interface.
HADiT
Lead Investigator(s) Itsik Pe'er
HADiT (Haplotype Amplification Distortion in Tumors) is a tool for computing and visualizing allelic distortion in tumor SNP data.
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HATS
Lead Investigator(s) Itsik Pe'er
A tool for calling amplified alleles and constructing the amplified haplotype within called tumor amplicons.
HELIOS
Lead Investigator(s) Dana Pe'er
Integrates genomic data from primary tumors with data from functional RNAi screens to pinpoint driver genes within large recurrently amplified regions of DNA.
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HERMES
Lead Investigator(s) Andrea Califano
Predicts competing endogenous RNA (ceRNA) interactions from expression profiles of candidate RNAs and their common miRNA regulators using conditional mutual information.
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HLA-IBD
Lead Investigator(s) Itsik Pe'er
A method for inferring per-locus human leukocyte antigen types using shared segments that are identical by descent (IBD), inferred from genotype data.
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HMAP
Lead Investigator(s) Barry Honig
A method for hybrid multidimensional alignment of profiles that combines sequence, secondary, and tertiary information in protein structures into profiles to facilitate the detection of remote homologs and perform sequence-to-sequence alignments.
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Inference of Modules Associated with eQTL's
Lead Investigator(s) Itsik Pe'er
A tool for constructing modules regulated by eQTLs using gene expression and SNP variation data across multiple individuals.
INFOSTIP
Lead Investigator(s) Itsik Pe'er
A tool for selecting individual for sequencing by total information potential, based on GERMLINE output.
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iPAGE
Lead Investigator(s) Saeed Tavazoie
A functional and categorical enrichment program based on mutual information.
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