How many samples can it analyze at the same time?

It depends on memory (RAM) installed in your computer. Though it's difficult to say an exact number, the tentative limitations per series on 4GB RAM box are like this.

  • ~ 100 samples with 25,000 probes.
  • ~ 50 samples with 50,000 probes.
  • ~ 10 samples with 250,000 probes.

But we don’t recommend you try upper limits, because the system gets unstable and erroneous when it's running short of memory. If you want to analyze a large data set, please use a computer with large memory (8 - 64 GB).
Performance is another issue. For better performance, high-spec machine with faster CPU and Soled State Drive (SSD) is the solution.