TrajectoryUtils

This is the released version of TrajectoryUtils; for the devel version, see TrajectoryUtils.

Single-Cell Trajectory Analysis Utilities

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DOI: 10.18129/B9.bioc.TrajectoryUtils

Bioconductor version: Release (3.22)

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>

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

Installation

To install this package, start R (version "4.5") 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")

Trajectory utilities HTML R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews GeneExpression, SingleCell, Software

Version 1.18.0

In Bioconductor since BioC 3.13 (R-4.1) (4.5 years)

License GPL-3

Depends SingleCellExperiment

Imports methods, stats, Matrix, igraph, S4Vectors, SummarizedExperiment

System Requirements

URL https://bioconductor.org/packages/TrajectoryUtils

Bug Reports https://github.com/LTLA/TrajectoryUtils/issues

Suggests BiocNeighbors, DelayedArray, DelayedMatrixStats, BiocParallel, testthat, knitr, BiocStyle, rmarkdown

Linking To

Enhances

Depends On Me slingshot, TSCAN

Imports Me condiments, singleCellTK, tradeSeq

Suggests Me

Links To Me

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Package Archives

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

Source Package TrajectoryUtils_1.18.0.tar.gz

Windows Binary (x86_64) TrajectoryUtils_1.17.0.zip

macOS Binary (x86_64) TrajectoryUtils_1.18.0.tgz

macOS Binary (arm64) TrajectoryUtils_1.18.0.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/

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