R: Microbiome Oriented Circadian Rhythm Analysis Toolkit

# Microbiome Oriented Circadian Rhythm Analysis Toolkit

## Documentation for package ‘kronos’ version 1.0.0

- DESCRIPTION file
- Package README

## Help Pages

bigdata | Snippet of example data to demonstrate the functionality of 'kronos' between and among three different groups
bigmeta | Descriptional metadata for the 'bigdata' object, for the purpose of demonstration.
build_kronos_formula | Update 'kronos' formula in light of sine and cosine components
delistKronos_groupwise | Get Results from list of KronosOut Objects
delistKronos_pairwise | Get Results from list of 'KronosOut' Objects
fit_cosinor_model | Fit cosinor model
fit_groupwise_model | Fit cosinor model
fw_kronos | Fit a cosinor model and extract relevant parameters on a feature table.
getKronos | Get Results from 'KronosOut' Object
getKronos_fit | Get Results from 'KronosOut' Object
getKronos_groupwise | Get Results from 'KronosOut' Object
getKronos_input | Get Results from 'KronosOut' Object
getKronos_pairwise | Get Results from 'KronosOut' Object
getKronos_pairwise_p | Get Results from 'KronosOut' Object
getKronos_params | Get Results from 'KronosOut' Object
getKronos_trace | Get Results from 'KronosOut' Object
get_cos_sine | Get sine and cosine components
get_vars | Figure out what variable represents time. Called by main 'kronos' function.
gg_kronos_acrogram | A plotting method for acrophase circleplots using 'ggplot2'.
gg_kronos_circle | A plotting method for circadian plots using 'ggplot2'.
gg_kronos_sinusoid | A plotting method for circadian plots using 'ggplot2'.
groupdata | Snippet of example data to demonstrate the functionality of 'kronos' between and among three different groups
kronos | Fit a cosinor model and extract relevant parameters
kronosListToTable | Wrangle results from list of 'KronosOut' Objects to publication ready table.
kronosOut-class | An S4 class to contain all output parameters and plotting information from the 'kronos' main pipeline
kronos_anova | Extract p-value from full fit
kronos_predict | Give tracing information for plotting purposes
onevariable | Snippet of example data to demonstrate the functionality of 'kronos' in the most simple scenario.
pairwise_cosinor_model | Fit pairwise cosinor models as some sort of TukeyHSD.
show-method | Show method for 'kronosOut' object.
twowaydata | Snippet of example data to demonstrate the functionality of 'kronos' in the two-factor design scenario.