pathifier
This is the development version of pathifier; for the stable release version, see pathifier.
Quantify deregulation of pathways in cancer
Bioconductor version: Development (3.21)
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
Maintainer: Assif Yitzhaky <assif.yitzhaky at weizmann.ac.il>
citation("pathifier")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("pathifier")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("pathifier")| Quantify deregulation of pathways in cancer | R Script | |
| Reference Manual |
Details
| biocViews | Network, Software |
| Version | 1.45.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (11 years) |
| License | Artistic-1.0 |
| Depends | |
| Imports | R.oo, princurve (>= 2.0.4) |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | funOmics |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | pathifier_1.45.0.tar.gz |
| Windows Binary (x86_64) | pathifier_1.45.0.zip |
| macOS Binary (x86_64) | pathifier_1.45.0.tgz |
| macOS Binary (arm64) | pathifier_1.45.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/pathifier |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/pathifier |
| Bioc Package Browser | https://code.bioconductor.org/browse/pathifier/ |
| Package Short Url | https://bioconductor.org/packages/pathifier/ |
| Package Downloads Report | Download Stats |