Analyses by scientific question

Choose the biological question first. Each page contains a real output figure, an exact call, every public argument, the calculation, equation, return fields, limitations, and paste-ready Methods text.

Period and rhythm

Compare period estimates Which period estimate should I trust? Test rhythmicity Is this series rhythmic under JTK or eJTK? Detect two circadian components Is this record carrying two circadian rhythms at once? Track phase and period Does phase or period drift through the recording?

Entrainment and perturbation

Fit a phase response curve How does stimulus timing change the clock? Measure a dose response How much stimulus does it take to move the clock? Measure phase angle How far is the daily marker from the zeitgeber transition? Measure re-entrainment How quickly did the clock catch a shifted schedule? Measure acute masking Did a light pulse change activity while it was present?

Sleep and environment

Score immobility sleep How much sustained immobility sleep occurred, and when? Measure food anticipation Did activity rise before the declared mealtime? Find ultradian rhythms Is there a repeatable rhythm faster than one day? Test temperature compensation Does period remain stable across temperature?

Within-recording population

Compare measurement channels Do two channels keep the same period and lag? Measure population synchrony Did the population damp because cells desynchronised? Map phase across space Is phase graded across the tissue? Measure pairwise coupling How far does one trace lead another, and is the lag stable? Separate phase and period dispersion Did coherence fall because periods diverged or phases spread?

Prediction and design

Plan sample size How many independent units are needed for the chosen effect? Predict the entrainment range Which zeitgeber periods can this phase response curve entrain to? Predict re-entrainment How many cycles should a schedule shift take? Fit the two-process sleep model Which sleep-pressure parameters are supported by this record? Predict sleep pressure What does the fitted sleep model predict under a new schedule?

For the execution order and equations shared by the core pipeline, read Circadian Workbench analysis explained. For every callable backend operation, use the complete action reference.