added first pass of OOD IGV

Author: RobJY

docs/hpc/09_ood/07_igv.md

@@ -0,0 +1,39 @@
+# 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:
+-   [User Guide](https://igv.org/doc/desktop/)
+-   [Tutorial Videos](https://www.youtube.com/channel/UCb5W5WqauDOwubZHb-IA_rA)
+
+## Getting Started
+You can run IGV in OOD by going to the URL [ood.hpc.nyu.edu](http://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](./static/ood_interactive_apps_igv.png)
+
+## Configuration
+
+You can select the number or cores, amount of memory, amount of time, and optional Slurm options.
+
+![OOD IGV Configuration](./static/ood_igv_config.png)
+
+## 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](./static/ood_igv_in_queue.png)
+
+Then you'll have a short wait for IGV itself to start up.<br />
+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](./static/ood_igv_prelaunch.png)
+
+Then after you hit the `Launch IGV` button you'll have the familiar IGV interface to use.
+
+![OOD IGV Running](./static/ood_igv_running.png)