projectR

This is the development version of projectR; for the stable release version, see projectR.

Functions for the projection of weights from PCA, CoGAPS, NMF, correlation, and clustering

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DOI: 10.18129/B9.bioc.projectR

Bioconductor version: Development (3.23)

Functions for the projection of data into the spaces defined by PCA, CoGAPS, NMF, correlation, and clustering.

Author: Gaurav Sharma, Charles Shin, Jared Slosberg, Loyal Goff, Genevieve Stein-O'Brien

Maintainer: Genevieve Stein-O'Brien <gsteinobrien at gmail.com>

Citation (from within R, enter citation("projectR")):

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("projectR")

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("projectR")

projectR HTML R Script

Reference Manual PDF

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews BiologicalQuestion, FunctionalPrediction, GeneRegulation, Software

Version 1.27.0

In Bioconductor since BioC 3.9 (R-3.6) (6.5 years)

License GPL (==2)

Depends R (>= 4.0.0)

Imports SingleCellExperiment, methods, cluster, stats, limma, NMF, ROCR, ggalluvial, RColorBrewer, dplyr, fgsea, reshape2, viridis, scales, Matrix, MatrixModels, msigdbr, ggplot2, cowplot, ggrepel, umap, tsne

System Requirements

URL https://github.com/genesofeve/projectR/

Bug Reports https://support.bioconductor.org/t/projectR/

Suggests BiocStyle, CoGAPS, gridExtra, grid, testthat, devtools, knitr, rmarkdown, ComplexHeatmap, gplots, SeuratObject

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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package projectR_1.27.0.tar.gz

Windows Binary (x86_64)

macOS Binary (x86_64)

macOS Binary (arm64) projectR_1.27.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/projectR

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/projectR

Bioc Package Browser https://code.bioconductor.org/browse/projectR/

Package Short Url https://bioconductor.org/packages/projectR/

Package Downloads Report Download Stats