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Integrative Genomics Viewer (IGV)

The IGV is a high-performance, easy-to-use, interactive tool for the visual exploration of genomic data.

Please see the following links for details:

Getting Started​

You can run IGV in OOD by going to the URL ood.hpc.nyu.edu in your browser and selecting IGV from the Interactive Apps pull-down menu at the top of the page. As you can see below, once you've used it and other interactive apps they'll show up on your home screen under the Recently Used Apps header.

note

Be aware that when you start from Recently Used Apps it will start with the same configuration that you used previously. If you'd like to configure your IGV session differently, you'll need to select it from the menu.

OOD Interactive Apps menu IGV

Configuration​

You can select the number or cores, amount of memory, amount of time, and optional Slurm options.

OOD IGV Configuration

IGV running in OOD​

After you hit the Launch button you'll have to wait for the scheduler to find you node(s) to run on: OOD IGV in queue

Then you'll have a short wait for IGV itself to start up.
Once that happens you'll get one last form that will allow you to:

  • make changes to compression and image qualtiy
  • open a terminal window on the compute node your IGV session is running on
  • get a link that you can share that will allow others to view your IGV session

Pre-launch IGV OOD

Then after you hit the Launch IGV button you'll have the familiar IGV interface to use.

OOD IGV Running