pathifier: Quantify deregulation of pathways in cancer

Pathifier is an algorithm that infers pathway deregulation scores for each tumor sample on the basis of expression data. This score is determined, in a context-specific manner, for every particular dataset and type of cancer that is being investigated. The algorithm transforms gene-level information into pathway-level information, generating a compact and biologically relevant representation of each sample.

Author
Yotam Drier
Date of publication
None
Maintainer
Assif Yitzhaky <assif.yitzhaky@weizmann.ac.il>
License
Artistic-1.0
Version
1.12.0

View on Bioconductor

Man pages

KEGG
Two pathways of the KEGG database
pathifier-package
Quantify deregulation of pathways in cancer
quantify_pathways_deregulation
Quantify deregulation of pathways in cancer
Sheffer
Sheffer et al. colorectal dataset

Files in this package

pathifier/DESCRIPTION
pathifier/NAMESPACE
pathifier/R
pathifier/R/pathifier.R
pathifier/build
pathifier/build/vignette.rds
pathifier/data
pathifier/data/KEGG.RData
pathifier/data/Sheffer.RData
pathifier/data/datalist
pathifier/inst
pathifier/inst/CITATION
pathifier/inst/doc
pathifier/inst/doc/Overview.R
pathifier/inst/doc/Overview.Rnw
pathifier/inst/doc/Overview.pdf
pathifier/man
pathifier/man/KEGG.Rd
pathifier/man/Sheffer.Rd
pathifier/man/pathifier-package.Rd
pathifier/man/quantify_pathways_deregulation.Rd
pathifier/vignettes
pathifier/vignettes/Overview.Rnw