gtrellis

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see gtrellis.

Genome Level Trellis Layout

Bioconductor version: 3.16

Genome level Trellis graph visualizes genomic data conditioned by genomic categories (e.g. chromosomes). For each genomic category, multiple dimensional data which are represented as tracks describe different features from different aspects. This package provides high flexibility to arrange genomic categories and to add self-defined graphics in the plot.

Author: Zuguang Gu [aut, cre]

Maintainer: Zuguang Gu <z.gu at dkfz.de>

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

Installation

To install this package, start R (version "4.2") and enter:


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

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("gtrellis")

Make Genome-level Trellis Graph HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Sequencing, Software, Visualization

Version 1.30.0

In Bioconductor since BioC 3.1 (R-3.2) (9 years)

License MIT + file LICENSE

Depends R (>= 3.1.2), grid, IRanges, GenomicRanges

Imports circlize (>= 0.4.8), GetoptLong, grDevices, utils

System Requirements

URL https://github.com/jokergoo/gtrellis

Suggests testthat (>= 1.0.0), knitr, RColorBrewer, markdown, rmarkdown, ComplexHeatmap(>= 1.99.0), Cairo, png, jpeg, tiff

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Package Archives

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

Source Package gtrellis_1.30.0.tar.gz

Windows Binary gtrellis_1.30.0.zip (64-bit only)

macOS Binary (x86_64) gtrellis_1.30.0.tgz

macOS Binary (arm64) gtrellis_1.30.0.tgz

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

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

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

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

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Old Source Packages for BioC 3.16 Source Archive