initial upload

Plots/Aggregate/condition_means.txt

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+HR (bpm) means by condition
+  Breathing Scene 1: 72.61
+  Spring Scene: 72.33
+  Summer Scene: 72.50
+  Autumn Scene: 72.89
+  Breathing Scene 2: 73.78
+
+RR (ms) means by condition
+  Breathing Scene 1: 843.33
+  Spring Scene: 860.78
+  Summer Scene: 862.00
+  Autumn Scene: 850.44
+  Breathing Scene 2: 839.94
+
+RMSSD (ms) means by condition
+  Breathing Scene 1: 52.70
+  Spring Scene: 56.95
+  Summer Scene: 41.15
+  Autumn Scene: 41.89
+  Breathing Scene 2: 42.59
+

Plots/Aggregate/summary_metrics.csv

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+recording,hr_breathing1,hr_spring,hr_summer,hr_autumn,hr_breathing2,rr_breathing1,rr_spring,rr_summer,rr_autumn,rr_breathing2,rmssd_breathing1_ms,rmssd_spring_ms,rmssd_summer_ms,rmssd_autumn_ms,rmssd_breathing2_ms
+01,87.0,89.0,89.0,88.0,87.0,699.0,693.0,686.0,701.0,707.0,75.1367831638441,47.63690458154883,23.391808541181874,36.68431460519737,24.471583665133853
+02,69.0,73.0,71.0,69.0,72.0,891.0,832.0,870.0,873.5,852.0,53.71211060541257,42.4170657740451,44.09779801162053,43.784099137450646,38.77094841086514
+03,75.0,74.0,74.0,75.0,75.0,819.0,843.0,834.0,820.0,822.5,69.46228568381616,65.3238088295531,56.21663329616004,62.99150175165927,59.70615066708719
+04,61.5,57.0,57.0,59.0,59.0,921.0,1078.0,1081.0,1029.0,1017.0,100.172055687905,78.81580309563599,71.07430592010952,69.79472798180429,65.00815333479332
+05,77.0,76.0,77.0,77.0,77.0,797.0,802.0,794.0,796.0,796.0,44.66948260340988,44.47527970738919,41.97254954436575,36.28292680038467,42.24885225945646
+06,75.0,75.0,75.0,75.5,77.0,800.0,819.0,818.0,813.0,797.0,20.207408031198344,86.48235146771054,17.226565108997946,13.241088507765,13.19090595827292
+07,67.0,66.0,67.0,68.0,69.0,924.0,937.5,920.0,900.0,891.0,17.59407401170116,17.724508232681533,16.48813469918856,14.439728083535256,14.138875535856439
+08,76.0,76.0,79.0,80.5,81.0,809.0,807.0,782.0,754.0,753.0,21.05777260856529,55.10173300715829,21.736187899601433,20.767202484425443,28.654622291015748
+10,66.0,65.0,63.5,64.0,67.0,930.0,935.5,973.0,967.5,924.0,72.31346606087537,74.54839828695744,78.18414427917381,79.0546797103496,97.0806947354755

README.md

@@ -0,0 +1,64 @@
+## Overview
+
+- Data source: `SingleRecordings/<id>/{hr.csv, rr.csv, timestamps.csv}`
+- Scripts:
+  - `plot_meditation_data.py`: per-recording plots (raw + moving averages + segment boxplots)
+  - `aggregate_segments_analysis.py`: aggregate metrics/plots across recordings with exactly 4 marks (conditions)
+
+## How calculations are done
+
+- HR and RR loading
+  - Read `timestamp` (ms) → convert to datetime; set as index.
+  - HR column: `hr` (beats per minute). RR column: `rr_ms` (milliseconds).
+
+- Moving averages (per recording)
+  - Time-based rolling means over irregular timestamps using windows: 5 s, 10 s, 30 s, 60 s.
+  - X-axis is seconds from each recording’s start.
+
+- Mark handling (per recording)
+  - Vertical lines at marks from `timestamps.csv`.
+  - Segment boxplots use values in: each interval between consecutive marks and the final interval (last mark → end).
+
+- RMSSD (HRV)
+  - Definition: RMSSD = sqrt(mean(diff(RR_ms)^2)) using successive RR intervals (ms).
+  - Aggregate per-condition RMSSD: computed over all RR samples within each condition’s time window (recording-level); requires ≥2 RR samples.
+  - Aligned time-series RMSSD: first compute a 30 s time-based rolling RMSSD per recording, then align and average across recordings (see below).
+
+- Aggregate metrics across recordings (exactly 4 marks)
+  - Conditions (English labels):
+    - Breathing Scene 1 (pre-first mark)
+    - Spring Scene (1st–2nd mark)
+    - Summer Scene (2nd–3rd mark)
+    - Autumn Scene (3rd–4th mark)
+    - Breathing Scene 2 (post-last mark)
+  - Per recording: compute medians for HR and RR within each condition; compute RMSSD within each condition.
+  - Summary CSV aggregates these per-recording values; boxplots show distributions. The mean of each condition is marked by a black dot on the boxplots.
+
+- Aligned average curves (HR, RR, RMSSD)
+  - Only recordings with exactly 4 marks are used.
+  - For each recording, durations of the five segments are measured; median segment proportions across recordings define a normalized 0–1 time axis with aligned boundaries.
+  - Each recording’s series is piecewise-linearly time-normalized to this axis, interpolated to a common grid, and then averaged (mean ± 1 SD). For RMSSD, a 30 s rolling RMSSD is used before alignment.
+
+# Results
+
+| Condition         | HR (bpm) | RR (ms) | RMSSD (ms) |
+|-------------------|----------|---------|------------|
+| Breathing Scene 1 | 72.61    | 843.33  | 52.70      |
+| Spring Scene      | 72.33    | 860.78  | 56.95      |
+| Summer Scene      | 72.50    | 862.00  | 41.15      |
+| Autumn Scene      | 72.89    | 850.44  | 41.89      |
+| Breathing Scene 2 | 73.78    | 839.94  | 42.59      |
+
+## Plots
+
+### Aggregate Boxplots
+
+![HR Boxplot Across Conditions](Plots/Aggregate/HR_boxplot_conditions.png)
+![RR Boxplot Across Conditions](Plots/Aggregate/RR_boxplot_conditions.png)
+![RMSSD Boxplot Across Conditions](Plots/Aggregate/RMSSD_boxplot_conditions.png)
+
+### Aligned Average Curves
+
+![Aligned Average Heart Rate (HR)](Plots/Aggregate/HR_average_aligned.png)
+![Aligned Average RR Interval](Plots/Aggregate/RR_average_aligned.png)
+![Aligned Average RMSSD](Plots/Aggregate/RMSSD_average_aligned.png)

SingleRecordings/01/hr.csv

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