loglik_smooth_spline

Calculate the penalised loglikelihood of a <code><a href="/link/smooth.spline?package=santaR&version=1.2.4" data-mini-rdoc="santaR::smooth.spline">smooth.spline</a></code> using the integrated second derivative. The likelihood consists of 1) the (weighted) residuals sum of squares, 2) a penalty term (integrated second derivative = total curvature). The smaller the penalised loglikelihood, the better the fit as the residuals and penalty on roughness are minimised. Adapted from <code>aroma.light::likelihood.smooth.spline</code>.

A graphical and automated pipeline for the analysis
of short time-series in R ('santaR'). This approach is designed to accommodate asynchronous
time sampling (i.e. different time points for different individuals),
inter-individual variability, noisy measurements and large numbers of variables.
Based on a smoothing splines functional model, 'santaR' is able to detect variables
highlighting significantly different temporal trajectories between study groups.
Designed initially for metabolic phenotyping, 'santaR' is also suited for other Systems Biology
disciplines. Command line and graphical analysis (via a 'shiny' application) enable fast and
parallel automated analysis and reporting, intuitive visualisation and comprehensive plotting
options for non-specialist users.

Arnaud Wolfer

santaR

Short Asynchronous Time-Series Analysis

Timothy Ebbels

Joe Cheng

loglik_smooth_spline function

<dl><dt>fittedSmoothSpline</dt>
<dd>A fitted <code><a href="/link/smooth.spline?package=santaR&version=1.2.4" data-mini-rdoc="santaR::smooth.spline">smooth.spline</a></code></dd></dl>

Arguments

Calculate the penalised loglikelihood of a <code><a href='https://rdrr.io/r/stats/smooth.spline.html'>smooth.spline</a></code> using the integrated second derivative. The likelihood consists of 1) the (weighted) residuals sum of squares, 2) a penalty term (integrated second derivative = total curvature). The smaller the penalised loglikelihood, the better the fit as the residuals and penalty on roughness are minimised. Adapted from <code>aroma.light::likelihood.smooth.spline</code>.

Calculate the penalised loglikelihood of a smooth.spline — loglik_smooth_spline

<dl>

<dt>fittedSmoothSpline</dt>
<dd>A fitted <code><a href='https://rdrr.io/r/stats/smooth.spline.html'>smooth.spline</a></code></dd>

</dl>

loglik_smooth_spline: Calculate the penalised loglikelihood of a smooth.spline

Description

Usage

Value

Arguments