CGAT: computational genomics analysis toolkit

David Sims, Nicholas E Ilott, Stephen N Sansom, Ian M Sudbery, Jethro S Johnson, Katherine A Fawcett, Antonio J Berlanga-Taylor, Sebastian Luna-Valero, Chris P Ponting, Andreas Heger

Research output: Contribution to journalArticlepeer-review

Abstract

Computational genomics seeks to draw biological inferences from genomic datasets, often by integrating and contextualizing next-generation sequencing data. CGAT provides an extensive suite of tools designed to assist in the analysis of genome scale data from a range of standard file formats. The toolkit enables filtering, comparison, conversion, summarization and annotation of genomic intervals, gene sets and sequences. The tools can both be run from the Unix command line and installed into visual workflow builders, such as Galaxy.

Original languageEnglish
Pages (from-to)1290-1
Number of pages2
JournalBioinformatics
Volume30
Issue number9
DOIs
Publication statusPublished - 1 May 2014

Keywords

  • Databases, Genetic
  • Genomics
  • High-Throughput Nucleotide Sequencing
  • Software
  • Workflow

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