bozdaglab/CTDPathSim: CTDPathSim: Cell line-tumor deconvoluted pathway-based similarity in the context of precision medicine in cancer

CTDPathSim is a computational pipeline to compute similarity scores between patient samples and cell lines using a pathway activity-based approach. CTDPathSim integrates sample-specific expression and methylation profiles utilizing a deconvolution method. CTDPathSim has four main computational steps. Step 1. Computing sample-specific deconvoluted methylation profile. Step 2. Computing sample-specific deconvoluted expression profile. Step 3. Computing sample and cell line-specific biological pathways. Step 4. Computing sample-cell line pathway activity-based similarity score.

Getting started

Package details

Bioconductor views DifferentialExpression DifferentialMethylation GO GeneExpression GeneRegulation Network Pathways Reactome
Maintainer
Licensefile LICENSE
Version0.99.16
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("bozdaglab/CTDPathSim")
bozdaglab/CTDPathSim documentation built on Dec. 21, 2020, 1:14 p.m.