Analysis of Quaternary Science Data

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Documentation for package ‘rioja’ version 1.0-5

• DESCRIPTION file.

Help Pages

A B C D F H I L M P R S W

rioja-package

Analysis of Quaternary Science Data

-- A --

aber	Abernethy Forest pollen data
addClustZone	Plot a stratigraphic diagram
addZone	Plot a stratigraphic diagram

-- B --

bstick	Constrained hierarchical clustering
bstick.chclust	Constrained hierarchical clustering

-- C --

chclust	Constrained hierarchical clustering
coef.IKFA	Imbrie & Kipp Factor Analysis
coef.LWR	Weighted averaging (LWR) regression and calibration
coef.MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
coef.MLRC2	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
coef.MR	Multiple regression
coef.WA	Weighted averaging (WA) regression and calibration
coef.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration
communality	Imbrie & Kipp Factor Analysis
compare.datasets	Compare datasets for matching variables (species)
crossval	Palaeoecological transfer functions
crossval.default	Palaeoecological transfer functions
crossval.IKFA	Imbrie & Kipp Factor Analysis
crossval.LWR	Weighted averaging (LWR) regression and calibration
crossval.MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
crossval.MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
crossval.MR	Multiple regression
crossval.WA	Weighted averaging (WA) regression and calibration
crossval.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration

-- D --

dot	Utility functions.
dot.data.frame	Utility functions.
dot.default	Utility functions.
dummy2factor	Utility functions.

-- F --

figCnvt	Graphic utilities.
fitted.IKFA	Imbrie & Kipp Factor Analysis
fitted.LWR	Weighted averaging (LWR) regression and calibration
fitted.MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
fitted.MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
fitted.MLRC2	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
fitted.MR	Multiple regression
fitted.WA	Weighted averaging (WA) regression and calibration
fitted.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration

-- H --

Hill.N2	Utility functions.
hulls	Graphic utilities.

-- I --

IK	Imbrie and Kipp foraminifera data
IKFA	Imbrie & Kipp Factor Analysis
IKFA.fit	Imbrie & Kipp Factor Analysis
inkspot	Two-way ordered bubble plot of a species by sites data table
interp.dataset	Interpolate a dataset

-- L --

LWR	Weighted averaging (LWR) regression and calibration
LWR.fit	Weighted averaging (LWR) regression and calibration

-- M --

make.dummy	Utility functions.
MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
Merge	Merges two or more data frames on the basis of common column names.
MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
MLRC.fit	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
MLRC2	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
MLRC2.fit	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
MR	Multiple regression
MR.fit	Multiple regression

-- P --

paldist	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
paldist2	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
performance	Palaeoecological transfer functions
performance.default	Palaeoecological transfer functions
performance.IKFA	Imbrie & Kipp Factor Analysis
performance.LWR	Weighted averaging (LWR) regression and calibration
performance.MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
performance.MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
performance.MLRC2	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
performance.MR	Multiple regression
performance.WA	Weighted averaging (WA) regression and calibration
performance.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration
plot.chclust	Constrained hierarchical clustering
plot.compare.datasets	Compare datasets for matching variables (species)
plot.IKFA	Imbrie & Kipp Factor Analysis
plot.LWR	Weighted averaging (LWR) regression and calibration
plot.MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
plot.MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
plot.MR	Multiple regression
plot.randomPTF	Random transfer functions to calculate variable importance
plot.WA	Weighted averaging (WA) regression and calibration
plot.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration
Ponds	Southeast England ponds and pools diatom and water chemistry dataset.
predict.IKFA	Imbrie & Kipp Factor Analysis
predict.LWR	Weighted averaging (LWR) regression and calibration
predict.MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
predict.MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
predict.MLRC2	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
predict.MR	Multiple regression
predict.WA	Weighted averaging (WA) regression and calibration
predict.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration
print.IKFA	Imbrie & Kipp Factor Analysis
print.LWR	Weighted averaging (LWR) regression and calibration
print.MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
print.MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
print.MLRC2	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
print.MR	Multiple regression
print.randomPTF	Random transfer functions to calculate variable importance
print.WA	Weighted averaging (WA) regression and calibration
print.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration

-- R --

rand.t.test	Palaeoecological transfer functions
rand.t.test.default	Palaeoecological transfer functions
rand.t.test.IKFA	Imbrie & Kipp Factor Analysis
rand.t.test.WA	Weighted averaging (WA) regression and calibration
rand.t.test.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration
randomPTF	Random transfer functions to calculate variable importance
residuals.IKFA	Imbrie & Kipp Factor Analysis
residuals.LWR	Weighted averaging (LWR) regression and calibration
residuals.MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
residuals.MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
residuals.MLRC2	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
residuals.MR	Multiple regression
residuals.WA	Weighted averaging (WA) regression and calibration
residuals.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration
rioja	Analysis of Quaternary Science Data
RLGH	Diatom stratigraphic data from the Round Loch of Glenhead, Galloway, Southwest Scotland

-- S --

screeplot.IKFA	Imbrie & Kipp Factor Analysis
screeplot.MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
screeplot.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration
site.summ	Utility functions.
sp.summ	Utility functions.
strat.plot	Plot a stratigraphic diagram
summary.IKFA	Imbrie & Kipp Factor Analysis
summary.LWR	Weighted averaging (LWR) regression and calibration
summary.MAT	Palaeoenvironmental reconstruction using the Modern Analogue Technique (MAT)
summary.MLRC	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
summary.MLRC2	Palaeoenvironmental reconstruction using Maximum Likelihood Response Surfaces
summary.MR	Multiple regression
summary.WA	Weighted averaging (WA) regression and calibration
summary.WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration
SWAP	SWAP surface sediment diatom data and lake-water pH.

-- W --

WA	Weighted averaging (WA) regression and calibration
WA.fit	Weighted averaging (WA) regression and calibration
WAPLS	Weighted averaging partial least squares (WAPLS) regression and calibration
WAPLS.fit	Weighted averaging partial least squares (WAPLS) regression and calibration