CORE FACILITY CELLULAR IMAGING
CEITEC Masaryk University
Kamenice 753/5
625 00 Brno CZ
cellim_support(at)ceitec.muni.cz
+420 54949 7085
+420 54949 6133
@Ceitec_CellimCF
ceitec_cellimcf
Cellular Imaging Core Facility
Odeon workstation
Odeon image processing server
Odeon is the main CELLIM image processing server for high-throughput microscopy image analysis, bioimage analysis and visualisation of large 3D/4D microscopy datasets. Odeon is a Windows Server 2019 system based on ACQUIFER HIVE and is designed for demanding remote image analysis workflows, batch processing and work with large microscopy data.
CELLIM is part of the Euro-BioImaging network, which makes CELLIM imaging and bioimage analysis services accessible to users from around the world. Thanks to this open-access infrastructure and Odeon's remote access, international users can use the CELLIM image processing server without needing to be physically present at CEITEC.
Users connect to Odeon through Remote Desktop Protocol (RDP). Connection is possible from Windows, macOS and Linux, including from outside CEITEC. Users may also come to the CELLIM facility and connect to Odeon from one of the local CELLIM PCs.
Hardware | |
| Platform | ACQUIFER HIVE-based Windows Server 2019 system |
| CPU | 2x Intel Xeon Gold 6248R, 48 cores / 92 threads, 3 GHz |
| RAM | 1 TB |
| GPU | NVIDIA Quadro RTX 6000 with 24 GB VRAM |
| Local temporary storage | 260 TB RAID6 storage system |
| Network | 2 Gbps link to microscopes, local network and external network |
Software on Odeon | |
| Imaris 11.0.1 | 3D/4D microscopy image visualisation and analysis, segmentation, object tracking, colocalization and quantitative bioimage analysis. |
| ZEN Blue 3.12 | Zeiss image processing, deconvolution, Airyscan processing and advanced microscopy image analysis. |
| ZEN Black 3.0 SR | Zeiss super-resolution and advanced image processing workflows. |
| CellProfiler | Automated and batch image analysis pipelines for high-throughput image processing. |
| Fiji / ImageJ | Open-source microscopy image processing, plugins and macro workflows. |
| Imaris Viewer | Viewing and inspection of Imaris datasets. |
| Leica LAS X | Leica image processing, viewing and exporting, including LIGHTNING deconvolution. |
| LAS X Single Molecule Detection | Single-molecule detection and FLIM-related analysis workflows. |
Odeon is recommended for large microscopy datasets, remote image analysis, Imaris 3D/4D analysis, Zeiss Airyscan and deconvolution workflows, Leica LIGHTNING deconvolution, FLIM analysis and automated CellProfiler batch processing.
Odeon includes large local temporary storage for active processing. This storage is intended for short-term data processing, not long-term archiving. According to the CELLIM Data Policy, the default quota on Acquifer-Odeon is 1 TB per user for 30 days; after this period, data may be removed. Users are responsible for moving final data to their own long-term storage.
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| Data Policy |