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

被引:319
作者
Wu, Gang [1 ]
Anafi, Ron C. [2 ,3 ]
Hughes, Michael E. [4 ]
Kornacker, Karl [5 ]
Hogenesch, John B. [1 ]
机构
[1] Univ Penn, Sch Med, Dept Syst Pharmacol & Translat Therapeut, Inst Translat Med & Therapeut, Philadelphia, PA 19104 USA
[2] Univ Penn, Sch Med, Div Sleep Med, Philadelphia, PA 19104 USA
[3] Univ Penn, Sch Med, Ctr Sleep & Circadian Neurobiol, Philadelphia, PA 19104 USA
[4] Univ Missouri, Dept Biol, St Louis, MO 63121 USA
[5] Ohio State Univ, Emeritus Prof Sensory Biophys, Columbus, OH 43210 USA
关键词
PATTERNS; CYCLE;
D O I
10.1093/bioinformatics/btw405
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
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.
引用
收藏
页码:3351 / 3353
页数:3
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