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GO::TermFinder

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Status
  • Mature release
  • Development: maintenance
  • Support: active


{{{PAGENAME}}} is open source
Resources


About GO TermFinder

GO TermFinder takes a list of genes as input, and determines whether there are enriched GO terms for that list. These modules provide an object oriented set of libraries for dealing with files produced by the Gene Ontology project. In particular, the GO TermFinder object allows a client program to provide a list of genes, from which it will determine p-values for the annotation associated with that list of genes. It does this using the hypergeometric distribution. In addition, a corrected p-value is calculated, to correct for multiple hypothesis testing. This distribution also contains a version of Shuai Weng's GO-View module (and associated classes), such that you can graphically display the output of the GO TermFinder. Some simple clients of these modules are provided in the examples directory of the download.



Downloads





Publications, Tutorials, and Presentations

Publications on or mentioning GO TermFinder

  • GO::TermFinder--open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. [1]


Contacts and Mailing Lists

GO TermFinder Development

Development team

Mike Cherry, David Botstein, John Matese


More on GO TermFinder

  1. Cite error: Invalid <ref> tag; no text was provided for refs named PMID:15297299






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Facts about "TermFinder"RDF feed
Available on platformlinux +, os x +, unix + and web +
Has URLhttp://search.cpan.org/dist/GO-TermFinder/ + and http://go.princeton.edu/cgi-bin/GOTermFinder/GOTermFinder +
Has descriptionGO TermFinder takes a list of genes as inpGO TermFinder takes a list of genes as input, and determines whether there are enriched GO terms for that list. These modules provide an object oriented set of libraries for dealing with files produced by the Gene Ontology project. In particular, the GO TermFinder object allows a client program to provide a list of genes, from which it will determine p-values for the annotation associated with that list of genes. It does this using the hypergeometric distribution. In addition, a corrected p-value is calculated, to correct for multiple hypothesis testing. This distribution also contains a version of Shuai Weng's GO-View module (and associated classes), such that you can graphically display the output of the GO TermFinder. Some simple clients of these modules are provided in the examples directory of the download.in the examples directory of the download. +
Has development statusmaintenance +
Has input formatgene list +
Has software maturity statusmature +
Has support statusactive +
Has topicGO::TermFinder +
Is open sourceYes +
Link typedownload + and public server +
Release date2003 +
Tool functionality or classificationOntology Visualization + and Gene list analysis +
Written in languagePerl +
Has subobjectThis property is a special property in this wiki.GO::TermFinder#http://search.cpan.org/dist/GO-TermFinder/ + and GO::TermFinder#http://go.princeton.edu/cgi-bin/GOTermFinder/GOTermFinder +