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Bioinformatics. 2016 Nov 1;32(21):3351-3353. Epub 2016 Jul 4.

MetaCycle: an integrated R package to evaluate periodicity in large scale data.

Author information

1
Department of Systems Pharmacology and Translational Therapeutics, Institute for Translational Medicine and Therapeutics.
2
Division of Sleep Medicine Center for Sleep and Circadian Neurobiology, University of Pennsylvania School of Medicine, Philadelphia, PA 19104, USA.
3
Department of Biology, University of Missouri-St. Louis, St. Louis, MO 63121, USA.
4
Emeritus Professor of Sensory Biophysics, the Ohio State University, Columbus, OH 43210, USA.

Abstract

Detecting periodicity in large scale data remains a challenge. While efforts have been made to identify best of breed algorithms, relatively little research has gone into integrating these methods in a generalizable method. Here, we present MetaCycle, an R package that incorporates ARSER, JTK_CYCLE and Lomb-Scargle to conveniently evaluate periodicity in time-series data. MetaCycle has two functions, meta2d and meta3d, designed to analyze two-dimensional and three-dimensional time-series datasets, respectively. Meta2d implements N-version programming concepts using a suite of algorithms and integrating their results.

AVAILABILITY AND IMPLEMENTATION:

MetaCycle package is available on the CRAN repository (https://cran.r-project.org/web/packages/MetaCycle/index.html) and GitHub (https://github.com/gangwug/MetaCycle).

CONTACT:

hogenesch@gmail.comSupplementary information: Supplementary data are available at Bioinformatics online.

PMID:
27378304
PMCID:
PMC5079475
DOI:
10.1093/bioinformatics/btw405
[Indexed for MEDLINE]
Free PMC Article

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