transPlotR

There are some packages to plot gene structures, for example ggbio, ggtranscript… But there are still some limitations for them. The IGV software provides a good visualization for gene multiple isoforms. If you want to plot protein-coding or non-coding genes, it seems a little bit difficult for you to draw with a lot of codes. Here I developed a small R package named transPlotR which make gene structure visualization much easier. You can provide a little parameters to trancriptVis to make a plot with your own GTF files.

Installation

You can install the development version of transPlotR like so:

# install.packages("devtools")
devtools::install_github("junjunlab/transPlotR")

Example

This is a basic example:

library(transPlotR)
## basic example code

data(gtf)

# non-coding gene
trancriptVis(gtfFile = gtf,
             gene = 'Xist')

More examples

• https://github.com/junjunlab/transPlotR/wiki/TransPlot-documentation