leapR
This is the development version of leapR; to use it, please install the devel version of Bioconductor.
Layered enrichment analysis of pathways R
Bioconductor version: Development (3.23)
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.
Author: Sara Gosline [aut, cre]
, Jason McDermott [aut], Jeremy Jacobson [aut], Vincent Danna [ctb], National Institutes of Health [fnd]
Maintainer: Sara Gosline <sara.gosline at pnnl.gov>
citation("leapR")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("leapR")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("leapR")| leapR | HTML | R Script |
| leapR | HTML | R Script |
| leapR | HTML | R Script |
| Reference Manual |
Details
| biocViews | GeneExpression, GeneSetEnrichment, Pathways, Proteomics, Software, Transcriptomics |
| Version | 0.99.8 |
| In Bioconductor since | BioC 3.23 (R-4.6) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.5.0) |
| Imports | stats, gplots, readr, tibble, gplots, methods, ggplot2, dplyr, stringr, tidyr, SummarizedExperiment, BiocStyle |
| System Requirements | |
| URL |
See More
| Suggests | knitr, rmarkdown, testthat (>= 3.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | leapR_0.99.8.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | leapR_0.99.5.tgz |
| macOS Binary (big-sur-arm64) | leapR_0.99.8.tgz |
| macOS Binary (sonoma-arm64) | leapR_0.99.5.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/leapR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/leapR |
| Bioc Package Browser | https://code.bioconductor.org/browse/leapR/ |
| Package Short Url | https://bioconductor.org/packages/leapR/ |
| Package Downloads Report | Download Stats |