Package: pathifier 1.45.0
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:
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pathifier.pdf |pathifier.html✨
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-1.45.0(bioc 3.21)pathifier-1.44.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 months agofrom:b29897578b. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 30 2024 |
| R-4.5-win | NOTE | Nov 30 2024 |
| R-4.5-linux | NOTE | Nov 30 2024 |
| R-4.4-win | NOTE | Nov 30 2024 |
| R-4.4-mac | NOTE | Nov 30 2024 |
| R-4.3-win | NOTE | Nov 30 2024 |
| R-4.3-mac | NOTE | Nov 30 2024 |
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 |
