TrajectoryUtils

DOI: 10.18129/B9.bioc.TrajectoryUtils  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see TrajectoryUtils.

Single-Cell Trajectory Analysis Utilities

Bioconductor version: 3.17

Implements low-level utilities for single-cell trajectory analysis, primarily intended for re-use inside higher-level packages. Include a function to create a cluster-level minimum spanning tree and data structures to hold pseudotime inference results.

Author: Aaron Lun [aut, cre], Kelly Street [aut]

Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("TrajectoryUtils")

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("TrajectoryUtils")

 

HTML	R Script	Trajectory utilities
PDF		Reference Manual

Details

biocViews	GeneExpression, SingleCell, Software
Version	1.8.0
In Bioconductor since	BioC 3.13 (R-4.1) (2.5 years)
License	GPL-3
Depends	SingleCellExperiment
Imports	methods, stats, Matrix, igraph, S4Vectors, SummarizedExperiment
LinkingTo
Suggests	BiocNeighbors, DelayedArray, DelayedMatrixStats, BiocParallel, testthat, knitr, BiocStyle, rmarkdown
SystemRequirements
Enhances
URL	https://bioconductor.org/packages/TrajectoryUtils
BugReports	https://github.com/LTLA/TrajectoryUtils/issues
Depends On Me	slingshot, TSCAN
Imports Me	condiments, singleCellTK, tradeSeq
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	TrajectoryUtils_1.8.0.tar.gz
Windows Binary	TrajectoryUtils_1.8.0.zip
macOS Binary (x86_64)	TrajectoryUtils_1.8.0.tgz
macOS Binary (arm64)	TrajectoryUtils_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/TrajectoryUtils
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/TrajectoryUtils
Bioc Package Browser	https://code.bioconductor.org/browse/TrajectoryUtils/
Package Short Url	https://bioconductor.org/packages/TrajectoryUtils/
Package Downloads Report	Download Stats