Package: TPAC 0.3.0
TPAC: Tissue-Adjusted Pathway Analysis of Cancer (TPAC)
Contains logic for single sample gene set testing of cancer transcriptomic data with adjustment for normal tissue-specificity. Frost, H. Robert (2023) "Tissue-adjusted pathway analysis of cancer (TPAC)" <doi:10.1101/2022.03.17.484779>.
Authors:
TPAC_0.3.0.tar.gz
TPAC_0.3.0.zip(r-4.7-any)TPAC_0.3.0.zip(r-4.6-any)TPAC_0.3.0.zip(r-4.5-any)
TPAC_0.3.0.tgz(r-4.6-any)TPAC_0.3.0.tgz(r-4.5-any)
TPAC_0.3.0.tar.gz(r-4.7-any)TPAC_0.3.0.tar.gz(r-4.6-any)
TPAC_0.3.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
TPAC/json (API)
| # Install 'TPAC' in R: |
| install.packages('TPAC', repos = c('https://hrobertfrost.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:69a2e3bec0. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 88 | ||
| source / vignettes | OK | 136 | ||
| linux-release | OK | 88 | ||
| macos-release | OK | 145 | ||
| macos-oldrel | OK | 165 | ||
| windows-devel | OK | 60 | ||
| windows-release | OK | 63 | ||
| windows-oldrel | OK | 49 | ||
| wasm-release | OK | 74 |
Exports:createGeneSetCollectiongetSupportedCancerTypestpactpacForCancertpacForCollection
Dependencies:data.tableMASSTPACData
TCGA liver cancer using MSigDB Hallmark collection example
Last update: 2023-10-26
Started: 2023-10-26
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Tissue-adjusted pathway analysis of cancer (TPAC) | TPAC-package |
| Utility function to help create gene set collection list object | createGeneSetCollection |
| Get supported cancer types | getSupportedCancerTypes |
| Tissue-adjusted pathway analysis of cancer (TPAC) algorithm | tpac |
| Executes the TPAC method on cancer gene expression data | tpacForCancer |
| TPAC method for multiple gene sets | tpacForCollection |