uSORT
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see uSORT.
uSORT: A self-refining ordering pipeline for gene selection
Bioconductor version: 3.9
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("uSORT")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("uSORT")
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("uSORT")| Quick Start | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CellBiology, DNASeq, GUI, ImmunoOncology, RNASeq, Software |
| Version | 1.10.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (7.5 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 |
| System Requirements | |
| URL |
See More
| Suggests | knitr, RUnit, testthat, ggplot2 |
| 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 | uSORT_1.10.0.tar.gz |
| Windows Binary | uSORT_1.10.0.zip |
| Mac OS X 10.11 (El Capitan) | uSORT_1.10.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/uSORT |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/uSORT |
| Bioc Package Browser | https://code.bioconductor.org/browse/uSORT/ |
| Package Short Url | https://bioconductor.org/packages/uSORT/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |