Trendy

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7

Breakpoint analysis of time-course expression data

Bioconductor version: Development (3.24)

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")):

Rhonda Bacher and Ning Leng. Trendy: Breakpoint analysis of time-course expression data. doi:10.18129/B9.bioc.Trendy, R package version 1.35.0, https://bioconductor.org/packages/Trendy.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

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	1.35.0
In Bioconductor since	BioC 3.7 (R-3.5) (8.5 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
Linking To
Enhances
Depends On Me
Imports Me	TiDEomics
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	Trendy_1.35.0.tar.gz
Windows Binary (x86_64)	Trendy_1.35.0.zip
macOS Binary (big-sur-x86_64)	Trendy_1.35.0.tgz
macOS Binary (sonoma-arm64)	Trendy_1.35.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Trendy
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Trendy
Package Short Url	https://bioconductor.org/packages/Trendy/
Package Downloads Report	Download Stats