TrajectoryUtils

DOI: 10.18129/B9.bioc.TrajectoryUtils    

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

Single-Cell Trajectory Analysis Utilities

Bioconductor version: Development (3.14)

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 "4.1") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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 1.1.2
In Bioconductor since BioC 3.13 (R-4.1) (< 6 months)
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, tradeSeq
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package TrajectoryUtils_1.1.2.tar.gz
Windows Binary TrajectoryUtils_1.1.2.zip
macOS 10.13 (High Sierra) TrajectoryUtils_1.1.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/TrajectoryUtils
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TrajectoryUtils
Package Short Url https://bioconductor.org/packages/TrajectoryUtils/
Package Downloads Report Download Stats

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