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uSORT

uSORT: A self-refining ordering pipeline for gene selection

Bioconductor version: 3.24 · Package version: 1.39.0

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.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("uSORT")

Details

MaintainerHao Chen <chen_hao@immunol.a-star.edu.sg>
AuthorMai Chan Lau, Hao Chen, Jinmiao Chen
LicenseArtistic-2.0
Downloads rank544
Source branchdevel
biocViewsCellBiology, DNASeq, GUI, ImmunoOncology, RNASeq, Software

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source packageuSORT_1.39.0.tar.gz
Windows binary (x86_64)uSORT_1.39.0.zip
macOS binary (arm64)uSORT_1.39.0.tgz
macOS binary (x86_64)uSORT_1.39.0.tgz
Dependencies

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

Suggests: knitr, RUnit, testthat, ggplot2