TCseq

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see TCseq.

Time course sequencing data analysis

Bioconductor version: 3.8

Quantitative and differential analysis of epigenomic and transcriptomic time course sequencing data, clustering analysis and visualization of temporal patterns of time course data.

Author: Mengjun Wu <minervajunjun at gmail.com>, Lei Gu <leigu at broadinstitute.org>

Maintainer: Mengjun Wu <minervajunjun at gmail.com>

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

Installation

To install this package, start R (version "3.5") and enter:


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

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("TCseq")

TCseq Vignette PDF R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews ChIPSeq, Clustering, DifferentialExpression, Epigenetics, ImmunoOncology, RNASeq, Sequencing, Software, TimeCourse, Visualization

Version 1.6.1

In Bioconductor since BioC 3.5 (R-3.4) (7 years)

License GPL (>= 2)

Depends R (>= 3.4)

Imports edgeR, BiocGenerics, reshape2, GenomicRanges, IRanges, SummarizedExperiment, GenomicAlignments, Rsamtools, e1071, cluster, ggplot2, grid, grDevices, stats, utils, methods, locfit

System Requirements

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Build Report Build Report

Package Archives

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

Source Package TCseq_1.6.1.tar.gz

Windows Binary TCseq_1.6.1.zip

Mac OS X 10.11 (El Capitan) TCseq_1.6.1.tgz

Source Repository git clone https://git.bioconductor.org/packages/TCseq

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TCseq

Bioc Package Browser https://code.bioconductor.org/browse/TCseq/

Package Short Url https://bioconductor.org/packages/TCseq/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.8 Source Archive