spectr provides a consistent interface to use various methods to calculate the periodogram of a time-course. The methods include Lomb-Scargle, fast Fourier transform, and three versions of the chi-square periodogram. To see how we’ve used spectr, check out the paper.

Installation

If you use RStudio, go to Tools -> Global Options… -> Packages -> Add… (under Secondary repositories), then enter:

You only have to do this once. Then you can install or update the package by entering:

if (!requireNamespace('BiocManager', quietly = TRUE))
  install.packages('BiocManager')

BiocManager::install('spectr')

Alternatively, you can install or update the package by entering:

if (!requireNamespace('BiocManager', quietly = TRUE))
  install.packages('BiocManager')

BiocManager::install('spectr', site_repository = 'https://hugheylab.github.io/drat/')

There’s also a docker image, which has all dependencies installed.

docker pull hugheylab/hugheyverse

Usage

See the examples and detailed guidance in the reference documentation.