English Article Count: 4
Our tools Article Count: 1
Presenting Article Count: 1
Our services Article Count: 1
Our IT resources Article Count: 2
R & D Article Count: 1
Phone book Article Count: 1
Contact us Article Count: 1
News Article Count: 1
Optical imaging Article Count: 0
Our facilities Article Count: 0
MRI-CRBM Article Count: 1
MRI-DBS-Optical Article Count: 1
MRI-IGH-Optical Article Count: 1
MRI-INM Article Count: 1
MRI-PHIV-LaGaillarde Article Count: 1
MRI-PHIV-Lavalette Article Count: 1
Our technologies Article Count: 23
Our formations Article Count: 3
Flow cytometry Article Count: 1
Our facilities (cytometry) Article Count: 0
MRI-IRCM-CYTO Article Count: 1
MRI-IGMM Article Count: 1
MRI-IGH-Cytometry Article Count: 1
Our technologies (cytometry) Article Count: 0
Our formations Article Count: 2
X-ray tomography Article Count: 1
Screening Article Count: 1
Image analysis Article Count: 3
Legal informations Article Count: 1
Software Article Count: 0
The facility provides access to proprietary analysis software, open source software and tools developed in house. We also provide access to deep-learning solutions including the training on your own data on our machines.
Proprietary software Article Count: 18
A number of image processing and analysis software packages are available on our analysis computers. Please contact us if you need help with on of the software packages.
open source software Article Count: 9
A number of open source image analysis software packages are available on our computers. Other open source packages can be installed on demand. Most of our computers are equipped for 3D/4D processing and also for training and applying deep learning solutions. If you need help with a open source image analysis software please contact us.
MRI tools Article Count: 7
Analysis tools and extensions developed at MRI. You can find the complete list of publicly available tools we developed in our github. Please contact us if you have an unsolved image analysis problem. We can either point you to already existing solutions of develop a custom tool for you.
deep-learning Article Count: 4
We developed a tool dl4mic, that allows are users to train and run deep learning solutions from a graphical user interface integrated into FIJI/ImageJ. Currently 4 network-models are available within the tool: UNet, Dense-UNet, Noise2Void and Stardist. The tool allows to quickly integrate further models. For cell-segmentation we propose Cellpose. Cellpose is already trained with a large number of cell images and can often be used without further training. Our version of cellpose allows to run batch processing from within the graphical user interface.
Workstations Article Count: 0
Our scientific workstations provide the hardware needed to run visualization and analysis software, including deep-learning solutions. You can make a reservation for a workstation here.
CRBM-workstations Article Count: 7
Please find below a list of the workstations available at the CRBM.
IGH-workstations Article Count: 3
Please find below a list of the workstations available at the IGH.
DBS-workstations Article Count: 1
Please find below a list of the workstations available at the DBS.
INM-workstations Article Count: 1
Please find below a list of the workstations available at the INM.
Lagaillarde-workstations Article Count: 1
Please find below a list of the workstations available at Lagaillarde.
Lavalette-workstations Article Count: 1
Please find below a list of the workstations available at Lavalette.
ISEM-workstations Article Count: 1
Please find below a list of the workstations available at ISEM.
Training and Consulting Article Count: 0
In the context of the Biocampus Montpellier workshops we are giving regularly workshops concerning image analysis topics. If you need help, have questions or want to discuss image analysis either contact us or just join one of our freely accessible "call for help" sessions.
Data Management Article Count: 1
Images can be transferred between the different sites of the imaging facility using our sftp-service. The transfer can be done offline, i.e. without keeping a session open on one of our workstations.
MRI hosts its own instance of the OMERO image database. You can centralize and manage the images you are actively working with using OMERO. You can also use the module OMERO.figure to create the figures for your publications directly from your image data in OMERO.
SUCCESS STORIES Article Count: 2
This page lists some examples of image analysis projects that have been successfully realized by MRI in the past.
LINKS AND TUTORIALS Article Count: 3
Links to tutorials and other useful image analysis resources.