ASHS
Description
ASHS is a software package for automatic segmentation of hippocampal subfields in MRI scans. ASHS requires a T1-weighted scan and an oblique coronal T2-weighted scan with high in-plane resolution. ASHS will automatically label main hippocampal subfields and medial temporal lobe subregions. ASHS is easy to train for other brain segmentation applications as well.
See ASHS Documentation for usage details.
Environment Modules
Run module spider ashs to find out what environment modules are available for this application.
System Variables
- HPC_ASHS_DIR - installation directory
- HPC_ASHS_CONF - default configuration file
- HPC_ASHS_ATLAS - atlases directory tree
Additional Information
Copy the default configuration file from $HPC_ASHS_CONF to your working directory if you need to change run parameters.
Atlas reference data is located in $HPC_ASHS_ATLAS directory tree.
Use an OnDemand desktop terminal to run scripts, which open images and GUI windows.