_pkgdown.yml

template:
  params:
    bootswatch: united

reference:
- title: "Importing Data"
  contents:
  - '`files2SpectraObject`'
  - '`matrix2SpectraObject`'

- title: "Data Summaries"
  contents:
  - '`sumGroups`'
  - '`sumSpectra`'
  - '`surveySpectra`'

- title: "Pre-Processing Data"
  desc: "Modifying/editing data"
  contents:
  - '`removeFreq`'
  - '`removeGroup`'
  - '`updateGroups`'
  - '`splitSpectraGroups`'
  - '`removeSample`'
  - '`baselineSpectra`'
  - '`normSpectra`'
  - '`binSpectra`'
  - '`sgfSpectra`'
  - '`clupaSpectra`'

- title: "Plots"
  contents:
  - '`plotSpectra`'
  - '`plotSpectraJS`'
  - '`reviewAllSpectra`'
  - '`surveySpectra`'
  - '`plotScores`'
  - '`plot3dScores`'
  - '`plotScree`'
  - '`plotLoadings`'
  - '`plot2Loadings`'
  - '`sPlotSpectra`'
  - '`pcaDiag`'
  - '`hcaScores`'
  - '`hcaSpectra`'
  - '`plotSpectraDist`'
  - '`aovPCAloadings`'
  - '`aovPCAscores`'
  - '`hmapSpectra`'
  - '`sampleDist`'
  - '`mclust3dSpectra`'

- title: "Exploratory Data Analysis"
  contents:
  - '`aov_pcaSpectra`'
  - '`c_pcaSpectra`'
  - '`r_pcaSpectra`'
  - '`cv_pcaSpectra`'
  - '`s_pcaSpectra`'
  - '`irlba_pcaSpectra`'
  - '`hcaScores`'
  - '`hcaSpectra`'
  - '`evalClusters`'
  - '`hypTestScores`'
  - '`mclustSpectra`'

- title: "Data Sets"
  contents:
  - '`Spectra`'
  - '`SrE.IR`'
  - '`metMUD1`'

- title: "Utilities & Reference"
  contents:
  - '`chkSpectra`'
  - '`check4Gaps`'
  - '`colorSymbol`'
  - '`conColScheme`'
  - '`chkGraphicsOpt`'
  - '`rowDist`'
  - '`ChemoSpec-package`'