mesoSPIM: Clear Images. Big samples. Open source.

@mesospim.bsky.social

185 Followers 8 Following

Light-sheet microscopes for large samples. Open source hardware and software. Run by @nvladimus.bsky.social and @voigtvision.bsky.social Overview: www.mesospim.org Mailing list: http://eepurl.com/hPBRhj Forum: forum.image.sc/tag/mesospim

Image presenting two of the speakers for the 10 Years of mesoSPIM symposium. Background of the image is a microscopy picture showing blood vessels in magenta and glial cells in cyan on a black field. On the top left, the photo of the first speaker is contained in a white-rimmed circle. On the top right the text reads: "Hei Ming Lai, The Chinese University of Hong Kong, HK" followed by the talk title "Customizing mesoSPIM-based workflows for clinical 3D tissue Diagnostics". On the lower part of the image, the second speaker is presented in a specular manner. On the lower left, text reads “Anna Maria Reuss, University Hospital, Zurich, Switzerland”, followed by the talk title “aDISCO - A Broadly Applicable Method for 3D Microscopy of Archival Paraffin-Embedded Human Tissues”. On the lower left, the photo of the second speaker is contained in a white-rimmed circle. On the bottom right it reads “10 Years of mesoSPIM Symposium”
Image presenting one of the speakers for the 10 Years of mesoSPIM symposium. Background of the image is a microscopy picture showing blood vessels in magenta and glial cells in cyan on a black field. On the left, the photo of the speaker is contained in a white-rimmed circle. On the right the text reads: "Adam Glaser, Allen Institute, WA, USA" followed by the talk title "New technologies for mapping centimeter scale tissues with nanoscale resolution". On the bottom right it reads “10 Years of mesoSPIM Symposium”
mage presenting one of the speakers for the 10 Years of mesoSPIM symposium. Background of the image is a microscopy picture showing blood vessels in magenta and glial cells in cyan on a black field. On the left, the photo of the speaker is contained in a white-rimmed circle, on the right text reads: "Laura Baudis, University of Zurich, Switzerland" followed by the talk title "Probing dark matter and neutrinos with light sheet microscopy". On the bottom right reads "10 Years of mesoSPIM Symposium”
### Performance :rocket: - implementation of time lapse function via script. See example script at `mesoSPIM/scripts/timelapse.py` for details. - images can now be displayed at full resolution during either live mode or acquisition, with no performance penalty. Deprecated config parameters: ``` python 'camera_display_live_subsampling': 2, 'camera_display_acquisition_subsampling': 2, ``` to enjoy full-resolution image in real time. The corresponding GUI elements for controlling the downsampling were removed. ### Bugfixes :bug: - duplication of sub-stacks while writing large H5 files (>0.5 TB) and freezing at the end of acquisition. Fixed by replacing signal/slot mechanism for CameraWindow image update to deque mechanism. Boosted performance and stability. - `MAX` projection is always on by default, if the dataset is asvaed in TIFF or RAW format. No need to check the box in the Image Processing Wizard. This generates maximum intensity projection as TIFF file for each stack in the acquisition list. - explicit initialization of the first raw in Acquisition Manager, to avoid undefined GUI widget states.