Skip to content
This repository has been archived by the owner on Sep 8, 2018. It is now read-only.
/ SwitchSeq Public archive

A tool to identify, annotate and visualise splicing switch events from RNA-seq data

Notifications You must be signed in to change notification settings

mgonzalezporta/SwitchSeq

Folders and files

NameName
Last commit message
Last commit date

Latest commit

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 

Repository files navigation

SwitchSeq

When working with RNA-seq data, several tools exist to quantify differences in splicing across conditions and to address the significance of those changes (e.g. DEXSeq, MMDIFF). Quiet often though, these tools result in a long list of genes that is difficult to interpret. By relying on transcript level quantifications, SwitchSeq provides a simple (yet powerful) approach to identify, annotate and visualise the most extreme changes in splicing across two different conditions, namely switch events. In brief, switch events are defined as those cases where, for a given gene, the identity of the most abundant transcript changes across conditions:

SwitchSeq overview

Identification, annotation and visualisation of extreme changes in splicing from RNA-seq experiments with SwitchSeq. Mar Gonzàlez-Porta, Alvis Brazma. Available in bioRxiv.

Related slides available in Slideshare

Quick navigation

License

SwitchSeq is licensed under GPLv2.

Contact

Mar Gonzàlez-Porta: [email protected]

About

A tool to identify, annotate and visualise splicing switch events from RNA-seq data

Resources

Stars

Watchers

Forks

Packages

No packages published