Package: TPAC 0.2.0

H. Robert Frost

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:H. Robert Frost [aut, cre]

TPAC_0.2.0.tar.gz
TPAC_0.2.0.tar.gz(r-4.5-noble)TPAC_0.2.0.tar.gz(r-4.4-noble)
TPAC_0.2.0.tgz(r-4.4-emscripten)TPAC_0.2.0.tgz(r-4.3-emscripten)
TPAC.pdf |TPAC.html✨
TPAC/json (API)
NEWS

# Install 'TPAC' in R:

install.packages('TPAC', repos = c('https://cran.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.

5 exports 0.00 score 3 dependencies 193 downloads

Last updated 11 months agofrom:b0c6c153a1. Checks:OK: 2. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Aug 21 2024
R-4.5-linux	OK	Aug 21 2024

Exports:createGeneSetCollection getSupportedCancerTypes tpac tpacForCancer tpacForCollection

Dependencies:data.table MASS TPACData

TCGA liver cancer using MSigDB Hallmark collection example

Rendered fromTPAC_liver_hallmark.Rnwusingutils::Sweaveon Aug 21 2024.

Last update: 2023-10-26
Started: 2023-10-26

Citation

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