domains / families / science / periodicity-detection

periodicity-detection

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Discovers a periodic signal of UNKNOWN period in time-series omics data and puts a defensible significance on it, especially when sampling is IRREGULAR (dropped timepoints, pooled harvests) so FFT/Welch/JTK are invalid. Estimates the dominant period with Lomb-Scargle / generalized Lomb-Scargle (scipy, astropy), corroborates with autocorrelation, resolves transient/time-varying periodicity with the wavelet CWT (pywt), and screens genome-wide with false-alarm probabilities under BH FDR. Use when finding an oscillation whose period is not known a priori, analyzing cell-cycle or ultradian rhythms, or handling unevenly sampled time courses. Not for testing a KNOWN 24-hour rhythm (see temporal-genomics/circadian-rhythms).

When to use

• finding an oscillation whose period is not known a priori
• analyzing cell-cycle or ultradian rhythms
• handling unevenly sampled time courses
• estimating dominant period with Lomb-Scargle
• resolving transient or time-varying periodicity
• screening genome-wide with false-alarm probabilities

When not to use

• testing a known 24-hour rhythm

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