Bioimaging Wiki

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Data will be deleted after: <b>3 months</b>
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&nbsp <br><b>Location</b>: <a href="/facility/bioimaging/lib/exe/fetch.php?media=colossus_map_new.png">Room P3-A-5</a><br> 
&rarr; <a href="/facility/bioimaging/doku.php?id=colossus_usage"><img src="/facility/bioimaging/lib/exe/fetch.php?media=chart_line.png">  Chronos Usage Statistics</a>
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===== System overview =====
Chronos is a 64-bit PC running Windows 10, equipped with:
  * 2x Intel® Xeon Processor E5 v4 Family (40 processors) @ 2.2GHz
  * 128 GB RAM memory
  * 2x 240 GB SSD + 55 TB disk space (6 x 12 TB disks configured as RAID 5)
  * 8 GB NVIDIA RTX4000, CUDA capable (graphic card)
  * 26" TFT monitor

Please [[imm-bioimaging@medicina.ulisboa.pt|contact us]] if you wish to use the workstation remotely.

===== Software  =====

  * {{:imaris_icon.png?35|}}  **[[https://imaris.oxinst.com/|Imaris 9.9.1]]**
      * Visualization, analysis and processing of 3D and 4D microscopy datasets

  * {{:qupath_icon.png?40|}} **[[https://qupath.github.io/|QuPath 0.4.3]]**
      * Open Software for Bioimage Analysis of whole slide images

  * {{:fiji_icon.png?35|}} **[[https://imagej.net/software/fiji/|FIJI]]**
      * FIJI is just ImageJ (“batteries-included” distribution of ImageJ2)

  * {{zen_icon.png?35|}} **[[https://www.zeiss.com/microscopy/en/products/software/zeiss-zen.html|Zeiss ZEN Blue 3.3 Desk]]**
      * **Airyscan Processing**, Stitching and MIP of .CZI files

  * {{slidebook_2022_icon.png?35|}} **[[https://www.intelligent-imaging.com/slidebook|3i Slidebook Reader 2022]]**
      * Supports .SLD file format.

  * {{::las_x.png?35|}} **[[https://www.leica-microsystems.com/products/microscope-software/p/leica-las-x-ls/|LAS X Office]]**
      * Supports .LIF file format.

  * {{nis_icon.png?35|}} **[[https://www.microscope.healthcare.nikon.com/products/software/nis-elements/viewer|Nikon NIS-Elements Viewer 5.21]]**
      * Supports .ND2 file format

  * {{::ndpview_icon.png?35|}} **[[https://www.hamamatsu.com/eu/en/product/life-science-and-medical-systems/digital-slide-scanner/U12388-01.html|Hamamatsu NDP.View 2]]**
      * Supports .NDPI file format

  * {{::living_image.png?32|}} **[[https://www.perkinelmer.com/product/li-software-for-lumina-1-seat-add-on-128110|Living Image 3.2]]**
      * Analyze data from IVIS Lumina


{{:warning.png?25|}} Data files older than **3 months** will be automatically deleted on this system, please copy your data to the iMM server using the desktop link.

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