leapR

Layered enrichment analysis of pathways R

Bioconductor version: 3.24 · Package version: 1.1.2

leapR is a package that identifies pathways that are enriched across diverse 'omics experiments. It leverages any tabular expression data (proteomics, transcriptomics) using the `SummarizedExperiment` object. It works with any pathway in the .gct file format.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("leapR")

Details

Maintainer	Sara Gosline <sara.gosline@pnnl.gov>
Author	Sara Gosline [aut, cre] (ORCID: <https://orcid.org/0000-0002-6534-4774>), Jason McDermott [aut], Jeremy Jacobson [aut], Vincent Danna [ctb], National Institutes of Health [fnd]
License	MIT + file LICENSE
URL	https://pnnl.github.io/leapR/
Downloads rank	169
Source branch	devel
biocViews	GeneExpression, GeneSetEnrichment, Pathways, Proteomics, Software, Transcriptomics

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source package	leapR_1.1.2.tar.gz
macOS binary (arm64)	leapR_1.1.2.tgz
macOS binary (x86_64)	leapR_1.1.2.tgz

Dependencies

Depends: R (>= 4.5.0)

Imports: stats, gplots, readr, tibble, gplots, methods, ggplot2, dplyr, stringr, tidyr, SummarizedExperiment, BiocStyle, BiocFileCache

Suggests: knitr, rmarkdown, testthat (>= 3.0.0)