Circadian study — phase, amplitude and environment

Separate clock phase from response amplitude using time-series observations and controlled timing. Record light, feeding and sampling schedules; distinguish entrainment from a single treatment response.

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{
  "nodes": [
    { "id": "clock", "type": "rounded", "label": "Biological oscillator", "x": 215, "y": 200, "width": 150, "height": 104, "fill": "#fef3c7", "stroke": "#b45309" },
    { "id": "light", "type": "octagon", "label": "Light schedule", "x": 40, "y": 40, "width": 150, "height": 104, "fill": "#e0f2fe", "stroke": "#0369a1" },
    { "id": "feed", "type": "octagon", "label": "Feeding / activity schedule", "x": 40, "y": 360, "width": 150, "height": 104, "fill": "#e0f2fe", "stroke": "#0369a1" },
    { "id": "sample", "type": "rounded", "label": "Repeated time-point sampling", "x": 390, "y": 200, "width": 150, "height": 104, "fill": "#fef3c7", "stroke": "#b45309" },
    { "id": "obs", "type": "card", "label": "Rhythmic readout", "x": 565, "y": 200, "width": 150, "height": 104, "fill": "#ccfbf1", "stroke": "#0f766e" },
    { "id": "batch", "type": "octagon", "label": "Sampling batch effects", "x": 390, "y": 520, "width": 150, "height": 104, "fill": "#e0f2fe", "stroke": "#0369a1" },
    { "id": "phase", "type": "card", "label": "Estimated phase", "x": 740, "y": 40, "width": 150, "height": 104, "fill": "#ccfbf1", "stroke": "#0f766e" },
    { "id": "amp", "type": "card", "label": "Estimated amplitude", "x": 740, "y": 360, "width": 150, "height": 104, "fill": "#ccfbf1", "stroke": "#0f766e" },
    { "id": "fit", "type": "rounded", "label": "Period and fit uncertainty", "x": 915, "y": 200, "width": 150, "height": 104, "fill": "#fce7f3", "stroke": "#be185d" }
  ],
  "edges": [
    { "id": "e0", "source": "light", "target": "clock", "label": "entrainment", "style": "dashed" },
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    { "id": "e2", "source": "clock", "target": "sample", "label": "observe cycle" },
    { "id": "e3", "source": "sample", "target": "obs", "label": "time series" },
    { "id": "e4", "source": "batch", "target": "obs", "label": "check confounding", "style": "dashed" },
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