IGV

Owned by Simon Alexander
Last updated: Dec 09, 2022
1 min read
1 Overview | 2 Using | 2.1 Multicore

Overview

  • IGV: Integrative Genomics Viewer: is a high-performance, easy-to-use, interactive tool for the visual exploration of genomic data. It supports flexible integration of all the common types of genomic data and metadata, investigator-generated or publicly available, loaded from local or cloud sources.

Using

Use the module name igv and igvtools to discover versions available and to load the application.

The IGV application is a GUI application and needs to be run from an interactive desktop from our Beartooth OnDemand service. Once the module is loaded, the application comes in two flavors: igv.sh and igv_hidpi.sg (uses a higher DPI).

The IGV Tools comes within the IGV GUI and can be accessed via the IGV menu.

It can also be run from the command-line (having its own module) and thus used on a cluster’s compute nodes.

IGV Tools can also be run as a stand alone GUI by calling igvtools gui via a terminal in an interactive desktop.

Multicore

It does not appear that any of the igvtools commands can be run across multiple cores.