Introduction | Analyzing data set using pathifier library
Package: pathifier 1.51.0
Assif Yitzhaky
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.
Authors:
pathifier_1.51.0.tar.gz
pathifier_1.51.0.zip(r-4.7)pathifier_1.51.0.zip(r-4.6)pathifier_1.51.0.zip(r-4.5)
pathifier_1.51.0.tgz(r-4.6-any)pathifier_1.51.0.tgz(r-4.5-any)
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pathifier_1.51.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
pathifier/json (API)
| # Install 'pathifier' in R: |
| install.packages('pathifier', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:pathifier-1.51.0(bioc 3.24)pathifier-1.50.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:03b4b53ee2. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 144 | ||
| linux-devel-x86_64 | NOTE | 190 | ||
| source / vignettes | OK | 284 | ||
| linux-release-x86_64 | NOTE | 197 | ||
| macos-release-arm64 | NOTE | 78 | ||
| macos-oldrel-arm64 | NOTE | 87 | ||
| windows-devel | NOTE | 87 | ||
| windows-release | NOTE | 75 | ||
| windows-oldrel | NOTE | 84 | ||
| wasm-release | OK | 95 |
Exports:quantify_pathways_deregulation
Dependencies:princurveR.methodsS3R.ooRcpp
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Quantify deregulation of pathways in cancer | pathifier-package pathifier |
| Two pathways of the KEGG database | KEGG |
| Quantify deregulation of pathways in cancer | quantify_pathways_deregulation |
| Sheffer et al. colorectal dataset | Sheffer |
