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TMixClust

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

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

Bioconductor version: Development (3.18)

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>

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

Installation

To install this package, start R (version "4.3") and enter: 

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

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

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

Details

biocViews Clustering, GeneExpression, Software, StatisticalMethod, TimeCourse
Version 1.23.0
In Bioconductor since BioC 3.6 (R-3.4) (6 years)
License GPL (>=2)
Depends R (>= 3.4)
Imports gss, mvtnorm, stats, zoo, cluster, utils, BiocParallel, flexclust, grDevices, graphics, Biobase, SPEM
Linking To
Suggests rmarkdown, knitr, BiocStyle, testthat
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Package Archives

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

Source Package TMixClust_1.23.0.tar.gz
Windows Binary TMixClust_1.23.0.zip
macOS Binary (x86_64) TMixClust_1.23.0.tgz
macOS Binary (arm64) TMixClust_1.23.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/TMixClust
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TMixClust
Bioc Package Browser https://code.bioconductor.org/browse/TMixClust/
Package Short Url https://bioconductor.org/packages/TMixClust/
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