title: CGAT: computational genomics analysis toolkit.
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.
authors.affiliation: CGAT, MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, Parks Road, Oxford OX1 3PT, UK.
authors.forename: David
authors.initials: D
authors.lastname: Sims
authors.forename: Nicholas E
authors.initials: NE
authors.lastname: Ilott
authors.forename: Stephen N
authors.initials: SN
authors.lastname: Sansom
authors.forename: Ian M
authors.initials: IM
authors.lastname: Sudbery
authors.forename: Jethro S
authors.initials: JS
authors.lastname: Johnson
authors.forename: Katherine A
authors.initials: KA
authors.lastname: Fawcett
authors.forename: Antonio J
authors.initials: AJ
authors.lastname: Berlanga-Taylor
authors.forename: Sebastian
authors.initials: S
authors.lastname: Luna-Valero
authors.forename: Chris P
authors.initials: CP
authors.lastname: Ponting
authors.forename: Andreas
authors.initials: A
authors.lastname: Heger
mesh_terms: D030541:Databases, Genetic; D023281:Genomics / Q000379:methods*; D059014:High-Throughput Nucleotide Sequencing; D012984:Software; D057188:Workflow