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Integrative Genomics Viewer (IGV)
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Integrative Genomics Viewer (IGV)

Integrative Genomics Viewer (IGV) is a tool for visualizing high-throughput, large sequencing data sets. It allows loading a reference genome, separate tracks, annotations from both local and remote sources. A web-tool is also available, running at https://igv.org/app/.



Integrative Genomics Viewer (IGV)

Integrative Genomics Viewer (IGV) is a tool for visualizing high-throughput, large sequencing data sets. It allows loading a reference genome, separate tracks, annotations from both local and remote sources. A web-tool is also available, running at https://igv.org/app/.

Topic

Genomics; Data visualisation; Sequence analysis

Details

  • Operation: Visualisation; Sequence assembly visualisation
  • Input: BAM, BED, BEDPE, BedGraph, bigBed, bigWig, Birdsuite Files, broadPeak, CBS, Chemical Reactivity Probing Profiles, chrom.sizes, CN, Custom File Formats, Cytoband, FASTA, GCT, CRAM, genePred, GFF/GTF, GISTIC, Goby, GWAS, IGV, LOH, MAF (Multiple Alignment Format), MAF (Mutation Annotation Format), Merged BAM File, MUT, narrowPeak, PSL, RES, RNA Secondary Structure Formats, SAM, Sample Info (Attributes) file, SEG, SNP, TAB, TDF, Track Line, Type Line, VCF, WIG
  • Output: -
  • Software interface: Graphical user interface; Web user interface
  • Language: Java
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: The MIT License
    • Cost: Free
  • Version name: -
    • Maturity: Mature
  • Credit: The National Cancer Institute (NCI) of the National Institutes of Health, the Informatics Technology for Cancer Reserarch (ITCR) of the NCI, the Starr Cancer Consortium.
  • Contact: igv-team _at_ broadinstitute.org
  • Collection: -

Publications

Robinson JT, Thorvaldsdottir H, Winckler W, Guttman M, Lander ES, Getz G, Mesirov JP "Integrative genomics viewer." Nat Biotechnol. 2011 Jan;29(1):24-6. https://doi.org/10.1038/nbt.1754
PMID: 21221095
PMCID: PMC3346182


Thorvaldsdóttir H, Robinson JT, Mesirov JP "Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration." Brief Bioinform. 2013 Mar;14(2):178-92. https://doi.org/10.1093/bib/bbs017
PMID: 22517427
PMCID: PMC3603213


Robinson JT, Thorvaldsdóttir H, Wenger AM, Zehir A, Mesirov JP "Variant Review with the Integrative Genomics Viewer." Cancer Res. 2017 Nov 1;77(21):e31-e34. https://doi.org/10.1158/0008-5472.CAN-17-0337
PMID: 29092934
PMCID: PMC5678989


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