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Principal surface fits are now displayed as contour
biplots. plot() draws each variable as the contour
lines of its fitted surface coordinate function f_j, so a
variable’s value is read off its contours at a sample’s position on the
surface, in place of the linear axes of a conventional biplot.
plot() gains arguments for tailoring the display:
vars to select which variables are drawn,
group to colour samples by a factor, nlevels
and col_contour to control the contour axes, and
main / outer_main to title individual panels
and the overall figure.
predictivity() reports sample
predictivity — the proportion of each sample’s squared length
that is reconstructed by the fitted surface. The per-sample values are
returned as a vector, with the mean over all samples in the
"overall" attribute.
contour_predictive_error() reports, for each
variable, the root-mean-square difference between the value read from
its contour lines and the sample’s actual value. This measures how
accurately a variable can be recovered by reading its contours; the mean
over variables is in the "overall" attribute.
predict() returns the values read from the contour
axes at each sample’s position, back-transformed to the variables’
original scales.
fitted() returns the fitted surface coordinates
f_j(lambda_i) for every sample and variable, in the working
(centred / scaled) units.
print() summarises a fit: the number of samples and
variables, the loess span, the number of iterations to convergence, and
the variable names.
The package is now released under the MIT licence (previously GPL-3).
Added a package website at https://raeesaganey91.github.io/prinsurf/ and a bug tracker at https://github.com/RaeesaGaney91/prinsurf/issues.
The Description field now cites Hastie and Stuetzle
(1989) doi:10.1080/01621459.1989.10478797.
Added the vignette Contour biplots, working through a fit and its diagnostics end to end.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.