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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


Bioconductor version: Development (3.19)

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 "4.4") 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

Details

biocViews BiologicalQuestion, FunctionalPrediction, GeneRegulation, Software
Version 1.19.2
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License GPL (==2)
Depends R (>= 4.0.0)
Imports 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/
See More
Suggests BiocStyle, CoGAPS, gridExtra, grid, testthat, devtools, knitr, rmarkdown, ComplexHeatmap, gplots, SeuratObject
Linking To
Enhances
Depends On Me
Imports Me ATACCoGAPS
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package projectR_1.19.2.tar.gz
Windows Binary projectR_1.19.2.zip
macOS Binary (x86_64) projectR_1.19.2.tgz
macOS Binary (arm64) projectR_1.19.2.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