TMixClust

DOI: 10.18129/B9.bioc.TMixClust    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see TMixClust.

Time Series Clustering of Gene Expression with Gaussian Mixed-Effects Models and Smoothing Splines

Bioconductor version: 3.10

Implementation of a clustering method for time series gene expression data based on mixed-effects models with Gaussian variables and non-parametric cubic splines estimation. The method can robustly account for the high levels of noise present in typical gene expression time series datasets.

Author: Monica Golumbeanu <golumbeanu.monica at gmail.com>

Maintainer: Monica Golumbeanu <golumbeanu.monica at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("TMixClust")

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("TMixClust")

 

PDF	R Script	Clustering time series gene expression data with TMixClust
PDF		Reference Manual
Text		NEWS

Details

biocViews	Clustering, GeneExpression, Software, StatisticalMethod, TimeCourse
Version	1.8.0
In Bioconductor since	BioC 3.6 (R-3.4) (2.5 years)
License	GPL (>=2)
Depends	R (>= 3.4)
Imports	gss, mvtnorm, stats, zoo, cluster, utils, BiocParallel, flexclust, grDevices, graphics, Biobase, SPEM
LinkingTo
Suggests	rmarkdown, knitr, BiocStyle, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	TMixClust_1.8.0.tar.gz
Windows Binary	TMixClust_1.8.0.zip
Mac OS X 10.11 (El Capitan)	TMixClust_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/TMixClust
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/TMixClust
Package Short Url	https://bioconductor.org/packages/TMixClust/
Package Downloads Report	Download Stats