Israel Science and Technology Directory

Biomedical Software

Genome Browsers
Genome BrowserDescription
* EnsemblGenome databases for vertebrates and other eukaryotic species. Displays include transcript variation, genomic alignments, phylogenetic trees and genetic variation. European Bioinformatics Institute and Wellcome Trust Sanger Institute.
* UCSC Genome BrowserInteractive website offering access to genome sequence data from a variety of vertebrate and invertebrate species and major model organisms, integrated with a large collection of aligned annotations.
1000 Genomes Browser 1000 Genomes Browser at NCBI.
AnnmapGenome browser includes mappings between genomic features and Affymetrix microarrays.
Artemis Genome BrowserSanger Institute's genome browser and annotation tool that allows visualisation of sequence features, next generation data.
BiodallianceA fast, interactive, genome visualization tool that's easy to embed in web pages and applications. It supports integration of data from a wide variety of sources, and can load data directly from popular genomics file formats.
CGViewCircular Genome Viewer for generating high quality, zoomable maps of circular genomes. PNG, JPG, or Scalable Vector Graphics (SVG) format.
ChromoZoomInteractive genome browser for both curated and custom data, with a focus on ease of use and flexibility.
CiViCircular Visualization for microbial genomes to create circular genome maps.
CircleatorCircleator produces circular plots of genome-associated data.
CircosSoftware package for circular information presentation for comparative genomics
DiProGBVisualization of nucleotide sequences as dinucleotide-encoded sequence graphs.
G-compassComparative genome browser that visualizes evolutionarily conserved genomic regions between human and other 12 vertebrates based on original genome alignments.
GenPlayCan display either micro-array or sequencing data. It also displays tracks adapted to summarize gene structure, gene expression; repeat families, CPG islands.
GenomeViewGenomeView provides interactive visualization of sequences, annotation, multiple alignments, syntenic mappings, short read alignments and more.
Golden Helix GenomeBrowseMultiple coverage and pile-up views that make mismatches stand out. A large annotation library curated by Golden Helix.
HuRef Genome BrowserDiploid genome sequence of J. Craig Venter. The graphical interface depicts the haploid sequence with SNP and insertion/deletion DNA variants as identified by genome assembly and comparison methods.
Integrated Genome Browser (IGB)Customizable genome browser you can use to view and explore genomic data and annotations, especially RNA-Seq and ChIP-Seq data sets.
Integrative Genomics Viewer (IGV)Visualization tool for interactive exploration of large, integrated genomic datasets. It supports a wide variety of data types, including array-based and next-generation sequence data, and genomic annotations.
JBrowse Genome BrowserA fast, embeddable genome browser.
MochiViewProvides a powerful interface for setting up plots using databases. Gene tracks specialized to allow display of multiple isoforms and sub-features such as introns, exons, and UTRs.
NCBI Gene viewThis site provides an integrated graphic view of genomic regions, transcripts, products and other features for genes from diverse organisms.
Plant Genome BrowsersPlantGDB genome browsers to display current gene structure models and transcript evidence from spliced alignments of EST and cDNA sequences.
TGAC BrowserGenomic Browser developed to visualise genome annotation from Ensembl Database Schema.
VEGA Genome BrowserA repository for high-quality gene models produced by the manual annotation of vertebrate genomes.