15 projects
circadian-workbench
Local-first, reproducible circadian activity analysis
PyMicroglia
Microglial imaging analysis: registration, filtering, segmentation, tracing and figures, with a keyed artefact store
Auto-Organotypic
Automated analysis of bioluminescence and fluorescence time-lapse recordings from organotypic suprachiasmatic nucleus (SCN) slices.
PyLV200
Pull images from a running Olympus/Evident cellSens experiment before the .vsi is written
PyIncucyte
Download Incucyte live-cell imaging TIFFs from Python, a CLI, or a desktop app.
Relative-Intensity-Pattern-Registration
Gain-invariant, robust registration of microscopy time series
ClockCytePy
Python port of ClockCyteR.spatial — spatiotemporal and network analysis of circadian rhythms in SCN slices
ripr
Shortcut for Relative-Intensity-Pattern-Registration; installs that package
PyFLASH-analysis
ImageJ confocal microscopy data processing and analysis pipeline
PySCNSlice
Automated analysis of bioluminescence and fluorescence time-lapse recordings from organotypic suprachiasmatic nucleus (SCN) slices.
reprofig
Verifiable figures with their data, provenance, and optional statistics built in
scnslice
Automated analysis of bioluminescence and fluorescence time-lapse recordings from organotypic suprachiasmatic nucleus (SCN) slices.
analysis-kit
Shared house style and agent chassis for the lab's analysis projects
py-incucyte-gui
Python CLI and Tkinter GUI for downloading Incucyte live-cell imaging TIFFs.
incucyteai
CLI and Tkinter GUI for downloading Incucyte live-cell imaging TIFFs.
