Biomedical Imaging Research Unit

Software

Computers within the Biomedical Imaging Research Unit are available for image processing and analysis.

There are no user charges for staff and students of The University of Auckland, however you still need to be an authorised user in order to make a booking using the BIRU Scheduler.

BIRU staff can offer individualised support and training for the following packages

ImageJ/Fiji
MetaMorph - includes a number of application modules
Image-Pro Plus 3D - includes the SharpStack deconvolution module
ZEN - includes Intellesis and colocalization modules as well as Airyscan processing
Fluoview - full licence - includes spectral deconvolution
Amira - includes deconvolution

Some documentation is available here.

BIRU also provides remote access to two virtual machines, that were developed in collaboration with the Centre for eResearch. The intention is to provide enhanced resources where desktops are insufficient.

Image J/Fiji Virtual Server

There are 2 licences available and bookings are managed via the BIRU Scheduler.

Virtual machine for VSlide Data on the NECTAR Cloud

The Nectar Research Cloud is a service of the Australian Research Data Commons (ARDC).

The Australian Research Data Commons (ARDC) is enabled by the National Collaborative Research Infrastructure Strategy Program (NCRIS).

This VM runs VS Viewer, Fiji and iLastik and is designed to support image processing and analysis of the very large data sets acquired on the VSlide slide scanner.

To access these VMs, please contact Ratish.