• Home
• Bioconductor 3.24
• Software Packages
• TSCAN (development version)

TSCAN

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0

Tools for Single-Cell Analysis

DOI: 10.18129/B9.bioc.TSCAN

Bioconductor version: Development (3.24)

Provides methods to perform trajectory analysis based on a minimum spanning tree constructed from cluster centroids. Computes pseudotemporal cell orderings by mapping cells in each cluster (or new cells) to the closest edge in the tree. Uses linear modelling to identify differentially expressed genes along each path through the tree. Several plotting and interactive visualization functions are also implemented.

Author: Zhicheng Ji [aut, cre], Hongkai Ji [aut], Aaron Lun [ctb]

Maintainer: Zhicheng Ji <zji4 at jhu.edu>

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

Zhicheng Ji, Hongkai Ji. TSCAN: Tools for Single-Cell Analysis. doi:10.18129/B9.bioc.TSCAN, R package version 1.51.0, https://bioconductor.org/packages/TSCAN.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("TSCAN")

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("TSCAN")

Details

Package Archives

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