Cloud ASHS: Overview

Overview

The easiest way to try out ASHS with an existing atlas is through a new web-based system. Your images will be sent, anonymized and encrypted, to a secure server and processed on a Linux cluster at the Penn Image Computing and Science Laboratory (PICSL) at the University of Pennsylvania. This service is currently provided for free.

Requirements

• You will need to install ITK-SNAP 3.8 or later
• You need to have a Google account (i.e., gmail) to login to the server
• Your data must be compatible with one of the atlases available on the system.

GUI or Command Line?

The easiest way to run ASHS is using the graphical user interface (GUI) in ITK-SNAP. With just a few clicks you can send your image datasets to the server for processing. Follow one of the tutorials below, depending on what kind of MRI data you are interested in segmenting:

• Cloud ASHS GUI tutorial: Hippocampal subfields from T2-weighted and T1-weighted MRI
• Cloud ASHS GUI tutorial: Medial temporal lobe subregions from T1-weighted MRI only

If you need to process several datasets as part of the script, it is preferable to use a command-line tool itksnap-wt that is installed as part of ITK-SNAP. Follow the tutorial below:

• Cloud ASHS command-line tutorial

For large projects, please install ASHS locally - our server is currently set up to handle only a moderate number of requests.