hddplot: Use Known Groups in High-Dimensional Data to Derive Scores for Plots

Cross-validated linear discriminant calculations determine the optimum number of features. Test and training scores from successive cross-validation steps determine, via a principal components calculation, a low-dimensional global space onto which test scores are projected, in order to plot them. Further functions are included that serve didactic purposes.

Author
John Maindonald
Date of publication
2016-11-03 23:09:33
Maintainer
John Maindonald <john.maindonald@anu.edu.au>
License
GPL (>= 2)
Version
0.57-2
URLs

View on CRAN

Man pages

accTrainTest
Two subsets of data each take in turn the role of test set
aovFbyrow
calculate aov F-statistic for each row of a matrix
cvdisc
Cross-validated accuracy, in linear discriminant calculations
cvscores
For high-dimensional data with known groups, derive scores...
defectiveCVdisc
defective accuracy assessments from linear discriminant...
divideUp
Partition data into mutiple nearly equal subsets
Golub
Golub data (7129 rows by 72 columns), after normalization
golubInfo
Classifying factors for the 72 columns of the Golub data set
hddplot.package
For high-dimensional data with known groups, derive scores...
orderFeatures
Order features, based on their ability to discriminate
pcp
convenience version of the singular value decomposition
plotTrainTest
Plot predictions for both a I/II train/test split, and the...
qqthin
a version of qqplot() that thins out points that overplot
scoreplot
Plot discriminant function scores, with various...
simulateScores
Generate linear discriminant scores from random data, after...

Files in this package

hddplot
hddplot/inst
hddplot/inst/CITATION
hddplot/inst/doc
hddplot/inst/doc/QUICKhddplot.pdf
hddplot/inst/doc/QUICKhddplot.R
hddplot/inst/doc/hddplot.pdf
hddplot/inst/doc/QUICKhddplot.Rnw
hddplot/NAMESPACE
hddplot/demo
hddplot/demo/classifyRandom.R
hddplot/demo/00Index
hddplot/demo/biasedPlots.R
hddplot/demo/CVscoreplot.R
hddplot/data
hddplot/data/golubInfo.rda
hddplot/data/Golub.rda
hddplot/data/datalist
hddplot/R
hddplot/R/aovFbyrow.R
hddplot/R/cvdisc.R
hddplot/R/defectiveCVdisc.R
hddplot/R/qqthin.R
hddplot/R/scoreplot.R
hddplot/R/orderFeatures.R
hddplot/R/plotTrainTest.R
hddplot/R/divideUp.R
hddplot/R/simulateScores.R
hddplot/R/pcp.R
hddplot/R/accTrainTest.R
hddplot/R/cvscores.R
hddplot/vignettes
hddplot/vignettes/QUICKhddplot.Rnw
hddplot/MD5
hddplot/README
hddplot/build
hddplot/build/vignette.rds
hddplot/DESCRIPTION
hddplot/man
hddplot/man/golubInfo.Rd
hddplot/man/orderFeatures.Rd
hddplot/man/cvdisc.Rd
hddplot/man/pcp.Rd
hddplot/man/defectiveCVdisc.Rd
hddplot/man/simulateScores.Rd
hddplot/man/Golub.Rd
hddplot/man/hddplot.package.Rd
hddplot/man/scoreplot.Rd
hddplot/man/plotTrainTest.Rd
hddplot/man/aovFbyrow.Rd
hddplot/man/cvscores.Rd
hddplot/man/accTrainTest.Rd
hddplot/man/divideUp.Rd
hddplot/man/qqthin.Rd