Stephan Preibisch @preibischs@qoto.org

Voll geil!

RS-FISH is a new #FIJI plugin for single-molecule FISH analysis
https://www.nature.com/articles/s41592-022-01669-y
I spent an hour playing with it. Installation was very easy & instructions of use are clear. I got nice spot detection on a not-so-nice FISH image.
I need to learn more about this tool, particularly using with masks & batch processing - but seems very nice & easy to use.
@preibischs @successprocess
#mRNA #fluorescence #smFISH #SingleMolecule #microscopy #imaging

Calling all UK-based early career woman scientists! Please apply for the L’Oréal For Women in Science Fellowship. The deadline is 02/12, the application is super short (500 words!!) and the £15k is flexible. Happy to help talk through your proposal/ personal statement. Please email me! https://www.forwomeninscience.com/challenge/show/58 #WomenInSTEM #ChemToots #ChemMastodon #ScienceMastodon

3,013 neurons, half a million synapses: the complete #connectome of the whole #Drosophila larval brain!

Winding, Pedigo et al. 2022. "The connectome of an insect brain" https://www.biorxiv.org/content/10.1101/2022.11.28.516756v1

We’ve mapped and analysed its circuit architecture, from sensory neurons to brain output neurons, as reconstructed from volume electron microscopy, and here is what we found. 1/

#neuroscience #connectomics #vEM #volumeEM

If you happen to own the cheap but amazing Behringer X-TOUCH mini #MIDI controller, you can use it to navigate in #Fiji 's #N5 #BigDataViewer plugin. The video is an older capture from when I was playing around with the controller but it work's exactly the same. The API works for all #MCU devices but you would have to provide the layout https://github.com/saalfeldlab/n5-viewer/blob/master/src/main/java/org/janelia/saalfeldlab/control/mcu/XTouchMiniMCUControlPanel.java (also, infinity VPots without physical min and max are useful for this). PRs welcome!

If you could apply in ~15 min to potentially receive #free of charge #microscopy 🔬image data #analysis #support from a group of experts @AI4Life. Would that be interesting for you?!? 🤔 #AI4Life https://ai4life.eurobioimaging.eu

📢Latin Americans doing a PhD in Computer Science📢

Apply by Jan 11, 2023 for a Google PhD fellowship:
$15K in funding and mentorship from a Google researcher!

👇🏾👇🏾Read more below 👇🏾👇🏾
https://blog.google/around-the-globe/google-latin-america/phd-fellowship-research-latin-america

For #FluorescenceFriday, here is an #HHMIJanelia FlyLight #Drosophila Split-GAL4 volume (LH2041) in magenta, with a matching FLyEM Hemibrain V1.2.1 skeleton (LHPV12a1, 480590566) in green. The match was found by the color-depth search algorithm of Hideo Otsuna, Masayoshi Ito, and Takashi Kawase running in the NeuronBridge system (https://neuronbridge.janelia.org). Volume rendering in NeuronBridge is interactive, so in addition to this view...(1/5)

Twitter– gehen oder bleiben? Und ist Mastodon eine echte Alternative? Die Plattform wissenschaftskommunikation.de hat sich dem Thema genähert und #Wisskomm-Profis zu Wort kommen lassen. Mit dabei ist auch Anne Rother von der FZJ-Unternehmenskommunikation: https://www.wissenschaftskommunikation.de/twitter-gehen-oder-bleiben-63465/

#introduction

I'm a Software Engineer at @HHMI 's #Janelia Research Campus in Scientific Computing. Where I work on software related to microscopy where I mostly use #JuliaLang, #Java, and #Python. I'm interested in Open Science, Open Data, and Open Source Software.

I was formerly a postdoc in Cell Biology at #Northwestern and #UTSouthwestern and a graduate student in Systems Biology and Biophysics at #UTSW and #UCSD. I concentrated in Biological Chemistry and Mathematics at #UChicago.