glog_opt_plot: Glog optimisation

In computational-metabolomics/structtoolbox: Data processing & analysis tools for Metabolomics and other omics

Glog optimisation

Description

A plot of the sum of squares error (SSE) vs different values of lambda for the glog transform. The indicated optimum value for lambda minimises the SSE.

Usage

glog_opt_plot(plot_grid = 100, ...)

Arguments

plot_grid	(numeric) The default is 100.
...	Additional slots and values passed to struct_class.

Details

This object makes use of functionality from the following packages:

• pmp

Value

A glog_opt_plot object. This object has no output slots. See chart_plot in the struct package to plot this chart object.

Inheritance

A glog_opt_plot object inherits the following struct classes:

⁠[glog_opt_plot]⁠ >> ⁠[chart]⁠ >> ⁠[struct_class]⁠

References

Jankevics A, Lloyd GR, Weber RJM (2023). pmp: Peak Matrix Processing and signal batch correction for metabolomics datasets. doi:10.18129/B9.bioc.pmp https://doi.org/10.18129/B9.bioc.pmp, R package version 1.14.0, https://bioconductor.org/packages/pmp.

Examples

M = glog_opt_plot(
      plot_grid = numeric(0))

D = iris_DatasetExperiment()
M = glog_transform(qc_label='versicolor',factor_name='Species')
M = model_apply(M,D)
C = glog_opt_plot()
chart_plot(C,M,D)

computational-metabolomics/structtoolbox documentation built on Feb. 9, 2024, 8:19 a.m.