This is the released version of pathMED; for the devel version, see pathMED.
Scoring Personalized Molecular PortraitsBioconductor version: Release (3.21)
PathMED is a collection of tools to facilitate precision medicine studies with omics data (e.g. transcriptomics). Among its funcionalities, genesets scores for individual samples may be calculated with several methods. These scores may be used to train machine learning models and to predict clinical features on new data. For this, several machine learning methods are evaluated in order to select the best method based on internal validation and to tune the hyperparameters. Performance metrics and a ready-to-use model to predict the outcomes for new patients are returned.
Author: Jordi Martorell-Marugán [cre, aut] ORCID: 0000-0002-5186-0735 , Daniel Toro-DomÃnguez [aut] ORCID: 0000-0001-8440-312X , Raúl López-DomÃnguez [aut] ORCID: 0000-0001-8634-117X , Iván Ellson [aut] ORCID: 0000-0001-6307-3141
Maintainer: Jordi Martorell-Marugán <jmartorellm at gmail.com>
Citation (from within R, entercitation("pathMED")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("pathMED")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("pathMED")Follow Installation instructions to use this package in your R session.
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