plotHCA

An object of S3 class <code><a rd-options="" href="/link/Spectra?package=ChemoSpec&version=5.0.88" data-mini-rdoc="ChemoSpec::Spectra">Spectra</a></code>.

spectra

A <code><a rd-options="" href="/link/hclust?package=ChemoSpec&version=5.0.88" data-mini-rdoc="ChemoSpec::hclust">hclust</a></code> object.

hclst

A character string for the subtitle.

sub.title

Logical; if true, the color scheme will be black and
lower-case letters will be used to indicate group membership.

use.sym

Character; if <code>"none"</code> no legend will be drawn.
Otherwise, any string acceptable to <code><a rd-options="" href="/link/legend?package=ChemoSpec&version=5.0.88" data-mini-rdoc="ChemoSpec::legend">legend</a></code>.

leg.loc

Additional parameters to be passed to the plotting routines.

&#8230;

This function plots the results of an HCA analysis of a
<code><a rd-options="" href="/link/Spectra?package=ChemoSpec&version=5.0.88" data-mini-rdoc="ChemoSpec::Spectra">Spectra</a></code> object. Not generally called by the user --
<code><a rd-options="" href="/link/hcaSpectra?package=ChemoSpec&version=5.0.88" data-mini-rdoc="ChemoSpec::hcaSpectra">hcaSpectra</a></code> and <code><a rd-options="" href="/link/hcaScores?package=ChemoSpec&version=5.0.88" data-mini-rdoc="ChemoSpec::hcaScores">hcaScores</a></code> use it (see those pages
for examples).

multivariate

hplot

cluster

A collection of functions for top-down exploratory data analysis
of spectral data including nuclear magnetic resonance (NMR), infrared (IR),
Raman, X-ray fluorescence (XRF) and other similar types of spectroscopy.
Includes functions for plotting and inspecting spectra, peak alignment,
hierarchical cluster analysis (HCA), principal components analysis (PCA) and
model-based clustering. Robust methods appropriate for this type of high-dimensional
data are available. ChemoSpec is designed for structured experiments, such as
metabolomics investigations, where the samples fall into treatment and
control groups. Graphical output is formatted consistently for publication quality
plots. ChemoSpec is intended to be very user friendly and to help you get usable
results quickly. A vignette covering typical operations is available.

Bryan Hanson

ChemoSpec

Exploratory Chemometrics for Spectroscopy

Bryan A. Hanson

Mike Bostock

plotHCA function

An object of S3 class <code><a rd-options='' href='Spectra'>Spectra</a></code>.

A <code><a rd-options='' href='hclust'>hclust</a></code> object.

Character; if <code>"none"</code> no legend will be drawn.
Otherwise, any string acceptable to <code><a rd-options='' href='legend'>legend</a></code>.

This function plots the results of an HCA analysis of a
<code><a rd-options='' href='Spectra'>Spectra</a></code> object. Not generally called by the user --
<code><a rd-options='' href='hcaSpectra'>hcaSpectra</a></code> and <code><a rd-options='' href='hcaScores'>hcaScores</a></code> use it (see those pages
for examples).

plotHCA: Plot Dendrogram for Spectra Object

Description

Usage

Arguments

Value

References