Data analysis tools

Hardware:

  • 5 Offline analysis computers (OA1-5)
  • Remote access to workstation with high computation power (Amira, Imaris, NIS-Elements denoising AI)
  • overview and technical specifications of available hardware [PDF]

To get access to the workstation and OA computers remotely, users outside the Faculty of Science at BIOCEV need to contact Dalibor Pánek, dalibor.panek@natur.cuni.cz. Please, provide your BIOCEV user name for access via VPN and/or IP address for direct access from computers at BIOCEV.

Software:

Commercial software

Amira
Imaris
Kaluza
  • 10 floating licenses available for your personal PCs
    available as well on OA5 PC (personal PCs preferred – users using FlowJo are therefore not blocked)
  • manual for remote access [PDF]
FlowJo
Huygens
  • 1 license available on Metacentrum via OA1 PC (for access, Huygens must be reserved in advance)
  • for setting up connection to Metacentrum refer to Huygens manual [PDF]
  • for remote access to OA1 PC refer to general manual [PDF]
NIS-Elements (with AI)
  • 1 license available via dongle server (once installed on personal PC, dongle can be “borrowed” from server)
  • pre-installed on Workstation1 and OA2 PC (reservation required)
  • for remote access refer to general manual [PDF]
  • for dongle server setup refer to dongle server manual [PDF]
Matlab
  • available on OA1-4 PCs
    currently installed toolboxes: Curve Fitting, Image Processing, Parallel Computing, Signal Processing
  • all toolboxes are available, just contact member of IMCF for upgrade
  • for remote access refer to general manual [PDF]
LabVIEW
  • home-made tools “TTTR Data Analysis” and “Data analysis_18” for FLIM and point and line-scan FCS data analysis
  • available on OA3 PC
  • for remote access refer to general manual [PDF]

Installed freeware tools

FIJI
  • available on OA1-4 and most microscopic computers
ICY
  • available on OA1-4