All-in-one softwares (acquisition, processing, analysis)
Proprietary
- Zeiss Zen ZEISS ZEN Microscope Software for Microscope Components
- NIS-Elements Manufactured by Laboratory Imaging for Nikon
Comes in 2 flavours: Basic Research, Advanced Research plus some options Confocal, High-Content and Artificial intelligence (Ai) add-ons.
NIS-Elements Package comparison - Leica LASX LASX
- Olympus CellSens
- PicoQuant SymPhoTime
Acquisition softwares
Free and Open-source
- umanager https://micro-manager.org/ by Nico Stuurman and Mark Tsuchida https://micro-manager.org/Credits
Visualization, Processing and Analysis softwares
Free and Open-source
- ImageJ (NIH)
- FIJI (Fiji Is Just ImageJ)
- MorphoGraphX https://morphographx.org/
Dedicated to 4D analysis - ICY Home - Icy – Open Source Image Processing Software (bioimageanalysis.org)
- Ilastik https://www.ilastik.org/ Pixel Classification
- Cell Profiler https://cellprofiler.org/ Image Analysis and Quantification
- Qupath QuPath on Github
- Napari Napari
Proprietary
- Spot Imaging
Used to control Spot cameras with some analysis capabilities. Software ranges from 500$ to 1000$ - Imaris Oxford Instruments
Dedicated to multidimensional visualisation and analysis. Requires a License. - Image-Pro (MediaCybernetics)
To be tested.
Seems to be also sold by Asia Imaging - AutoQuant (MediaCybernetics)
Used for deconvolution. Fast, Simple and Accurate. Requires a license.
Seems to be also sold by Asia Imaging - Amira (Thermo Fisher Scientific)
To be tested - Metamorph MetaMorph® Software Suite Knowledge Base (moleculardevices.com)
Soon to be retired - Volocity Volocity Software (volocity4d.com)
- Huygens HomePage | Scientific Volume Imaging (svi.nl)
- VisioPharm VisioPharm
- MicroVolution: Very fast deconvolution
Utilities
- Bulk rename Utility Bulk Rename Utility - Free File Renaming Software
- VLC Official download of VLC media player, the best Open Source player - VideoLAN
- FFMPEG FFmpeg
- R The Comprehensive R Archive Network (r-project.org)
- R Studio RStudio - RStudio
- Atom Atom
- GitHub GitHub: Where the world builds software · GitHub
- Teams Download Microsoft Teams Desktop and Mobile Apps | Microsoft Teams
- Zoom https://zoom.us/support/download