wyguo/TSIS: Time-series isoform switch of alternative splicing

Alternative splicing (AS) is an essential process in plant and animal genomes, which regulates protein abundance and increases the protein biodiversity. In the AS regulation, one of the cases is a pair of isoforms from the same gene reverse their relative expression abundance (usage) at some stress reaction points, denoting as isoform switch event. Isoform switches often play pivotal roles in re-programming of gene regulation in response to biotic and abiotic stimuli, for instance the transcript isoform degradation of nonsense-mediated decay in a surveillance pathway. This package is used to determine, score and visualize the isoform switch patterns in isoform expression time-series data. All the analyses have been integrated into a Shiny App, in which users can implement analysis as easy as mouse click.

Getting started

Package details

AuthorWenbin Guo <[email protected]>
MaintainerWenbin Guo <[email protected]>
LicenseGPL-3
Version0.2.0
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("wyguo/TSIS")
wyguo/TSIS documentation built on Dec. 31, 2018, 1:09 a.m.