Julie Fabre
@juliefabre.bsky.social
Postdoc in Ilana Witten's lab. Former PhD student in Kenneth Harris and Matteo Carandini's lab. Follow for updates on bombcell and other Neuropixels software.
https://github.com/Julie-Fabre
https://github.com/Julie-Fabre
yay, this is great! Added it here: github.com/Julie-Fabre/...
github.com
October 16, 2025 at 1:56 PM
yay, this is great! Added it here: github.com/Julie-Fabre/...
For now it is compatible with Kilosort only. However we want to extend this! The fastest way would be to create a github issue / email me so I can add support for another sorter. We're also keen to integrate / be compatible with the amazing spike interface - stay tuned for that :)
June 16, 2025 at 2:49 PM
For now it is compatible with Kilosort only. However we want to extend this! The fastest way would be to create a github issue / email me so I can add support for another sorter. We're also keen to integrate / be compatible with the amazing spike interface - stay tuned for that :)
Big thanks to Sam Dodgson and @maxime-beau.bsky.social for help with this Python version
June 13, 2025 at 7:22 PM
Big thanks to Sam Dodgson and @maxime-beau.bsky.social for help with this Python version
🧠 BONUS: bombcell can also calculate ephys properties and classify your striatal cells into MSN/FSI/TAN (and UIN) categories!
June 13, 2025 at 7:21 PM
🧠 BONUS: bombcell can also calculate ephys properties and classify your striatal cells into MSN/FSI/TAN (and UIN) categories!
📈 How well does it work?
Preliminary data shows bombcell correctly labels white matter units, agrees with manual curation, and it is already in use in an estimated 30+ labs
Preliminary data shows bombcell correctly labels white matter units, agrees with manual curation, and it is already in use in an estimated 30+ labs
June 13, 2025 at 7:19 PM
📈 How well does it work?
Preliminary data shows bombcell correctly labels white matter units, agrees with manual curation, and it is already in use in an estimated 30+ labs
Preliminary data shows bombcell correctly labels white matter units, agrees with manual curation, and it is already in use in an estimated 30+ labs
Users can now also manually label a subset of units in the GUI, and bombcell will automatically suggest the optimal parameter thresholds for your dataset.
June 13, 2025 at 7:13 PM
Users can now also manually label a subset of units in the GUI, and bombcell will automatically suggest the optimal parameter thresholds for your dataset.
📊 Key feature
An important part of bombcell is the ability to quickly look at your data and quality metrics, using summary plots and an interactive GUI. Visual feedback makes it simple to fine-tune parameters for your specific needs.
An important part of bombcell is the ability to quickly look at your data and quality metrics, using summary plots and an interactive GUI. Visual feedback makes it simple to fine-tune parameters for your specific needs.
June 13, 2025 at 7:09 PM
📊 Key feature
An important part of bombcell is the ability to quickly look at your data and quality metrics, using summary plots and an interactive GUI. Visual feedback makes it simple to fine-tune parameters for your specific needs.
An important part of bombcell is the ability to quickly look at your data and quality metrics, using summary plots and an interactive GUI. Visual feedback makes it simple to fine-tune parameters for your specific needs.
🔧 How does it work?
bombcell uses a comprehensive set of quality metrics (waveform shape, ISI violations, drift, amplitude, spatial spread, refractory period violations, etc.) with tunable thresholds to automatically classify your units as good, MUA, noise or non-somatic.
bombcell uses a comprehensive set of quality metrics (waveform shape, ISI violations, drift, amplitude, spatial spread, refractory period violations, etc.) with tunable thresholds to automatically classify your units as good, MUA, noise or non-somatic.
June 13, 2025 at 7:00 PM
🔧 How does it work?
bombcell uses a comprehensive set of quality metrics (waveform shape, ISI violations, drift, amplitude, spatial spread, refractory period violations, etc.) with tunable thresholds to automatically classify your units as good, MUA, noise or non-somatic.
bombcell uses a comprehensive set of quality metrics (waveform shape, ISI violations, drift, amplitude, spatial spread, refractory period violations, etc.) with tunable thresholds to automatically classify your units as good, MUA, noise or non-somatic.