Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

19 April 2012 | Helga Thorvaldsdóttir, James T. Robinson and Jill P. Mesirov
The Integrative Genomics Viewer (IGV) is a high-performance desktop application for visualizing and exploring genomic data. It efficiently handles large, heterogeneous datasets and provides a smooth, intuitive user experience at all genome resolution levels. IGV supports both array-based and next-generation sequencing (NGS) data, as well as integration with clinical and phenotypic data. It is designed to be accessible to a wide range of users, including bench biologists and bioinformaticians. IGV supports flexible loading of local and remote datasets and is optimized for high-performance data visualization on standard desktop systems. It is freely available under a GNU GPL open-source license at http://www.broadinstitute.org/igv. IGV allows researchers to visualize various types of genomic data, including NGS data, variant calls, microarray data, and genome annotations. It also supports integrating metadata such as clinical and phenotypic information. IGV provides flexible and fast loading of local and remote datasets. For indexed files, IGV loads data as needed for regions in view, minimizing memory usage and data transfer of remote files. IGV has a flexible 'multilocus' mode that supports viewing multiple genomic regions side by side. It is freely available at http://www.broadinstitute.org/igv. IGV supports a variety of file formats, including non-indexed, indexed, and multiresolution formats. It uses a data tiling approach to efficiently handle large datasets. The data tiling implementation is based on a pyramidal data structure that allows for efficient rendering of data at different resolution levels. IGV also supports visualization of short-read sequence alignments and genome variation data in the VCF format. It provides tools for precomputing read coverage and supports viewing of multiple genomic regions simultaneously in adjacent panels. IGV provides a variety of ways to interact with data views, including zooming, panning, and filtering tracks based on sample attributes. It supports viewing of multiple genomic regions side by side in a 'multilocus' mode. IGV can be used to save and share sessions, allowing users to replicate the same view with collaborators. It also supports controlling IGV through batch scripts, socket ports, and HTTP interfaces. IGV is used extensively in a broad range of basic biology and biomedical studies and will continue to evolve with the changing needs of the biomedical research community. It supports visualization of NGS data, variant calls, and genomic annotations, and provides tools for analyzing and interpreting genomic data. IGV is a powerful tool for genomic data visualization and exploration, enabling researchers to gain insights into complex biological relationships.The Integrative Genomics Viewer (IGV) is a high-performance desktop application for visualizing and exploring genomic data. It efficiently handles large, heterogeneous datasets and provides a smooth, intuitive user experience at all genome resolution levels. IGV supports both array-based and next-generation sequencing (NGS) data, as well as integration with clinical and phenotypic data. It is designed to be accessible to a wide range of users, including bench biologists and bioinformaticians. IGV supports flexible loading of local and remote datasets and is optimized for high-performance data visualization on standard desktop systems. It is freely available under a GNU GPL open-source license at http://www.broadinstitute.org/igv. IGV allows researchers to visualize various types of genomic data, including NGS data, variant calls, microarray data, and genome annotations. It also supports integrating metadata such as clinical and phenotypic information. IGV provides flexible and fast loading of local and remote datasets. For indexed files, IGV loads data as needed for regions in view, minimizing memory usage and data transfer of remote files. IGV has a flexible 'multilocus' mode that supports viewing multiple genomic regions side by side. It is freely available at http://www.broadinstitute.org/igv. IGV supports a variety of file formats, including non-indexed, indexed, and multiresolution formats. It uses a data tiling approach to efficiently handle large datasets. The data tiling implementation is based on a pyramidal data structure that allows for efficient rendering of data at different resolution levels. IGV also supports visualization of short-read sequence alignments and genome variation data in the VCF format. It provides tools for precomputing read coverage and supports viewing of multiple genomic regions simultaneously in adjacent panels. IGV provides a variety of ways to interact with data views, including zooming, panning, and filtering tracks based on sample attributes. It supports viewing of multiple genomic regions side by side in a 'multilocus' mode. IGV can be used to save and share sessions, allowing users to replicate the same view with collaborators. It also supports controlling IGV through batch scripts, socket ports, and HTTP interfaces. IGV is used extensively in a broad range of basic biology and biomedical studies and will continue to evolve with the changing needs of the biomedical research community. It supports visualization of NGS data, variant calls, and genomic annotations, and provides tools for analyzing and interpreting genomic data. IGV is a powerful tool for genomic data visualization and exploration, enabling researchers to gain insights into complex biological relationships.
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