uSORT

DOI: 10.18129/B9.bioc.uSORT    

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

uSORT: A self-refining ordering pipeline for gene selection

Bioconductor version: Development (3.8)

This package is designed to uncover the intrinsic cell progression path from single-cell RNA-seq data. It incorporates data pre-processing, preliminary PCA gene selection, preliminary cell ordering, feature selection, refined cell ordering, and post-analysis interpretation and visualization.

Author: Mai Chan Lau, Hao Chen, Jinmiao Chen

Maintainer: Hao Chen <chen_hao at immunol.a-star.edu.sg>

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

Installation

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly=TRUE))
    install.packages("BiocManager")
BiocManager::install("uSORT", version = "devel")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("uSORT")

 

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Details

biocViews CellBiology, DNASeq, GUI, RNASeq, Software
Version 1.7.0
In Bioconductor since BioC 3.4 (R-3.3) (2 years)
License Artistic-2.0
Depends R (>= 3.3.0), tcltk
Imports igraph, Matrix, RANN, RSpectra, VGAM, gplots, parallel, plyr, methods, cluster, Biobase, fpc, BiocGenerics, monocle, grDevices, graphics, stats, utils
LinkingTo
Suggests knitr, RUnit, testthat, ggplot2
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package uSORT_1.7.0.tar.gz
Windows Binary uSORT_1.7.0.zip
Mac OS X 10.11 (El Capitan) uSORT_1.7.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/uSORT
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/uSORT
Package Short Url http://bioconductor.org/packages/uSORT/
Package Downloads Report Download Stats

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