0

I'm currently dealing with 4D microscopy images. Each time step consists of a z-stack of single PNG images. I want to view them and be able to scroll along the z axis as well as the time axis. ImageJ provides exactly that with its ability to concatenate stacks and displaying a window with a slider for time and z position, respectively. However this only works in RAM. Is there another software, or a plugin for a platform such as ImageJ or MeVisLab, that's able to handle larger amounts of data? It has to run on a Ubuntu 16.04 system. Please propose paid software only when there is a free trial version of some sort.

It would be splendid to have a solution in the biomedical context with the possibilites to apply segmentation algorithms etc. The good people at the ImageJ forums have pointed me to the BigDataViewer plugin, however this needs the data to be present in .hdf format plus some xml header.

  • Welcome to Software Recommendations! Could you please edit your question and add a few details: What Os must it run on, and what is your price limit if it comes to paid software? Also, speaking about "plugin": Where should it plug in to? – Izzy Aug 30 '17 at 12:27
  • Also how much RAM do you have? Upgrading to 64 or 128gb isn't that hard, but after that it gets hard. – cybernard Sep 9 '17 at 14:50
  • @cybernard I have 64GB now and it looks like I'll be allowed to order another 64 :) Why do you say it gets hard above 128? – smcs Sep 11 '17 at 12:04
  • Depending on your motherboard, numbers of memory slots, and gigs per slot you could run out of slots. – cybernard Sep 11 '17 at 21:50

Your Answer

By clicking “Post Your Answer”, you agree to our terms of service, privacy policy and cookie policy

Browse other questions tagged or ask your own question.