Galaxy (https://galaxyproject.org/) is a web-based platform for running scientific tools. The University of Iowa has a custom instance of Galaxy open to anyone with a uiowa email address. This instance dispatches jobs to the High Performance Computing (HPC) Neon cluster (https://wiki.uiowa.edu/display/hpcdocs/Neon+Overview+and+Quick+Start+Guide).
If you are new to Galaxy, you may want to consider attending one of the short summer courses hosted by the Iowa Institute of Human Genetics (IIHG Galaxy/Bioinformatics Education). These courses include hands-on Galaxy training.
To use the University of Iowa's instance of Galaxy, go to https://research-galaxy.hpc.uiowa.edu:44321/ and log in with your uiowa email address and Hawk ID password. Galaxy will automatically create an account for you if you don't already have one. You can then upload your data and start running tools/ workflows.
If you are not on a UI network, you may need to connect to Galaxy via VPN. See http://its.uiowa.edu/support/article/1876 for VPN setup instructions.
To upload files to Galaxy using the FTP protocol, please connect to research-galaxy.hpc.uiowa.edu on port 22021 using the 'sftp' command line tool, WinSCP (Windows), Cyberduck (Mac) or similar. Log in using your Hawk ID and Hawk ID password. After successfully logging in, change to the directory named the same as your Hawk ID.
Galaxy tutorials and screencasts from the Galaxy Project Wiki: https://wiki.galaxyproject.org/Learn
2015 IIHG Bioinformatics Short Course- Galaxy hands-on training: https://wiki.uiowa.edu/download/attachments/143640370/GalaxyTraining-20150519.pdf
2014 IIHG Bioinformatics Short Course- Galaxy hands-on training: https://wiki.uiowa.edu/display/galaxyusers/Galaxy+2014
2013 IIHG Bioinformatics Short Course- Using Galaxy to manipulate large datasets: http://medicine.uicapture.uiowa.edu/Panopto/Pages/Viewer/Default.aspx?id=ae554e6c-38e8-4d28-b6ee-3a22de4c5165
2013 IIHG Bioinfomatics Short Course II- Galaxy intro and file formats: https://wiki.uiowa.edu/download/attachments/89463895/bioinformatics_short_course_II.pdf
2013 IIHG Bioinfomatics Short Course II- Galaxy basics: https://wiki.uiowa.edu/download/attachments/89463895/Galaxy_Overview_Bioinformatics_Course.pdf
2012 IIHG Bioinformatics Short Course- Using Galaxy to manipulate large datasets: https://wiki.uiowa.edu/download/attachments/80413422/Lab1_Instructions.pdf
For UI Galaxy support requests, please contact firstname.lastname@example.org.