The hardware and bandwidth for this mirror is donated by dogado GmbH, the Webhosting and Full Service-Cloud Provider. Check out our Wordpress Tutorial.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]dogado.de.

phase: Analyse Biological Time-Series Data

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>.

Version: 1.2.9
Depends: R (≥ 2.10)
Imports: circular, lubridate, plotly, pracma, signal, zeitgebr, zoo, behavr, wesanderson, shiny, shinythemes, shinydashboard, shinycssloaders, shinyFiles
Published: 2023-03-09
DOI: 10.32614/CRAN.package.phase
Author: Lakshman Abhilash ORCID iD [aut, cre]
Maintainer: Lakshman Abhilash <labhilash at gc.cuny.edu>
License: MIT + file LICENSE
NeedsCompilation: no
CRAN checks: phase results

Documentation:

Reference manual: phase.pdf

Downloads:

Package source: phase_1.2.9.tar.gz
Windows binaries: r-devel: phase_1.2.9.zip, r-release: phase_1.2.9.zip, r-oldrel: phase_1.2.9.zip
macOS binaries: r-release (arm64): phase_1.2.9.tgz, r-oldrel (arm64): phase_1.2.9.tgz, r-release (x86_64): phase_1.2.9.tgz, r-oldrel (x86_64): phase_1.2.9.tgz
Old sources: phase archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=phase to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.