DESCRIPTION

Package: phase
Title: Analyse Biological Time-Series Data
Version: 1.2.1
Author: Lakshman Abhilash [aut, cre] (<https://orcid.org/0000-0002-9933-8989>)
Maintainer: Lakshman Abhilash <labhilash@gc.cuny.edu>
Authors@R: 
    person(given = "Lakshman",
           family = "Abhilash",
           role = c("aut", "cre"),
           email = "labhilash@gc.cuny.edu",
           comment = c(ORCID = "https://orcid.org/0000-0002-9933-8989"))
Description: Compiles functions to trim, bin, visualise, and analyse activity/sleep time-series data collected from the Drosophila Activity Monitor (DAM) system (Trikinetics, USA). The following methods were used to compute periodograms - Chi-square periodogram: Sokolove and Bushell (1978) <doi:10.1016/0022-5193(78)90022-X>, Lomb-Scargle periodogram: Lomb (1976) <doi:10.1007/BF00648343>, Scargle (1982) <doi:10.1086/160554> and Ruf (1999) <doi:10.1076/brhm.30.2.178.1422>, and Autocorrelation: Eijzenbach et al. (1986) <doi:10.1111/j.1440-1681.1986.tb00943.x>. Identification of activity peaks is done after using a Savitzky-Golay filter (Savitzky and Golay (1964) <doi:10.1021/ac60214a047>) to smooth raw activity data. Three methods to estimate anticipation of activity are used based on the following papers - Slope method: Fernandez et al. (2020) <doi:10.1016/j.cub.2020.04.025>, Harrisingh method: Harrisingh et al. (2007) <doi:10.1523/JNEUROSCI.3680-07.2007>, and Stoleru method: Stoleru et al. (2004) <doi:10.1038/nature02926>. Rose plots and circular analysis are based on methods from - Batschelet (1981) <ISBN:0120810506> and Zar (2010) <ISBN:0321656865>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2021-02-13 16:47:45 UTC; abhilashlakshman
Imports: circular, lubridate, plotly, pracma, signal, zeitgebr, zoo, behavr
Depends: 
    R (>= 2.10)