TMixClust

DOI: 10.18129/B9.bioc.TMixClust    

This package is for version 3.9 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: 3.9

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	1.6.0
In Bioconductor since	BioC 3.6 (R-3.4) (2 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
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Build Report

Package Archives

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

Source Package	TMixClust_1.6.0.tar.gz
Windows Binary	TMixClust_1.6.0.zip
Mac OS X 10.11 (El Capitan)	TMixClust_1.6.0.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