DOI: 10.18129/B9.bioc.TimeSeriesExperiment    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see TimeSeriesExperiment.

Analysis for short time-series data

Bioconductor version: 3.13

TimeSeriesExperiment is a visualization and analysis toolbox for short time course data. The package includes dimensionality reduction, clustering, two-sample differential expression testing and gene ranking techniques. Additionally, it also provides methods for retrieving enriched pathways.

Author: Lan Huong Nguyen [cre, aut]

Maintainer: Lan Huong Nguyen <nlhuong90 at gmail.com>

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


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biocViews Clustering, DifferentialExpression, GeneExpression, ImmunoOncology, Microbiome, Normalization, Pathways, PrincipalComponent, RNASeq, Sequencing, Software, TimeCourse, Transcription, Visualization
Version 1.10.1
In Bioconductor since BioC 3.8 (R-3.5) (3 years)
License MIT + file LICENSE
Depends R (>= 4.1), S4Vectors(>= 0.19.23), SummarizedExperiment(>= 1.11.6)
Imports dynamicTreeCut, dplyr, edgeR, DESeq2, ggplot2 (>= 3.0.0), graphics, Hmisc, limma, methods, magrittr, proxy, stats, tibble, tidyr, vegan, viridis, utils
Suggests Biobase, BiocFileCache(>= 1.5.8), circlize, ComplexHeatmap, GO.db, grDevices, grid, knitr, org.Mm.eg.db, org.Hs.eg.db, MASS, RColorBrewer, rmarkdown, UpSetR
URL https://github.com/nlhuong/TimeSeriesExperiment
BugReports https://github.com/nlhuong/TimeSeriesExperiment/issues
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Source Package TimeSeriesExperiment_1.10.1.tar.gz
Windows Binary TimeSeriesExperiment_1.10.1.zip
macOS 10.13 (High Sierra) TimeSeriesExperiment_1.10.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/TimeSeriesExperiment
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TimeSeriesExperiment
Package Short Url https://bioconductor.org/packages/TimeSeriesExperiment/
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