Trendy

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

Breakpoint analysis of time-course expression data

Bioconductor version: 3.8

Trendy implements segmented (or breakpoint) regression models to estimate breakpoints which represent changes in expression for each feature/gene in high throughput data with ordered conditions.

Author: Rhonda Bacher and Ning Leng

Maintainer: Rhonda Bacher <rbacher at ufl.edu>

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

Installation

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


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

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("Trendy")

Trendy Vignette PDF R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews ImmunoOncology, RNASeq, Regression, Software, TimeCourse

Version 1.4.6

In Bioconductor since BioC 3.7 (R-3.5) (6 years)

License GPL-3

Depends R (>= 3.4)

Imports stats, utils, graphics, grDevices, segmented, gplots, parallel, magrittr, BiocParallel, DT, S4Vectors, SummarizedExperiment, methods, shiny, shinyFiles

System Requirements

URL https://github.com/rhondabacher/Trendy

Suggests BiocStyle, knitr, rmarkdown, devtools

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Build Report Build Report

Package Archives

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

Source Package Trendy_1.4.6.tar.gz

Windows Binary Trendy_1.4.6.zip

Mac OS X 10.11 (El Capitan) Trendy_1.4.6.tgz

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

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

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

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

Package Downloads Report Download Stats

Old Source Packages for BioC 3.8 Source Archive