sigora (3.0.5)

0 users

Signature Overrepresentation Analysis.

http://cran.r-project.org/web/packages/sigora

Pathway Analysis is the process of statistically linking observations on the molecular level to biological processes or pathways on the systems(i.e. organism, organ, tissue, cell) level. Traditionally, pathway analysis methods regard pathways as collections of single genes and treat all genes in a pathway as equally informative. This can lead to identification of spurious pathways as statistically significant, since components are often shared amongst pathways. SIGORA seeks to avoid this pitfall by focusing on genes or gene-pairs that are (as a combination) specific to a single pathway. In relying on such pathway gene-pair signatures (Pathway-GPS), SIGORA inherently uses the status of other genes in the experimental context to identify the most relevant pathways. The current version allows for pathway analysis of human and mouse datasets and contains pre-computed Pathway-GPS data for pathways in the KEGG and Reactome pathway repositories as well as mechanisms for extracting GPS for user supplied repositories.

Maintainer: Amir Foroushani
Author(s): Amir B.K. Foroushani, Fiona S.L. Brinkman, David J. Lynn

License: GPL-2

Uses: slam

Released about 1 month ago.


3 previous versions

Ratings

Overall:

  (0 votes)

Documentation:

  (0 votes)

Log in to vote.

Reviews

No one has written a review of sigora yet. Want to be the first? Write one now.


Related packages:(20 best matches, based on common tags.)


Search for sigora on google, google scholar, r-help, r-devel.

Visit sigora on R Graphical Manual.