shipunov 1.9:
Misclass(..., bast=TRUE) reworked to speed up, everything is taken outside of cycles, 'force=TRUE' now also runs experimental fast tabulate()-based code;
Biarrows() is now by default with shift="auto" so arrows start out of the center without scaling;
Bclabels() now prints bootstrap values as is;
Ellipses() and especially Overlap() re-worked, the last now allows to output symmetric and negative overlaps;
Hulls() improved to return point indices as row names;
new function Vicinities() which helps to find "most central" observations;
new function Pinhull() which allows to caclculate polygon memberships, "membership overlaps", ellipse outliers and more;
help files improved
shipunov 1.8:
DESCRIPTION corrected;
Alldups() improved;
in Hulls() 'match.color' changed to 'match.colors' (hopefully, will not affect anything);
new function Tcoords() to calculate coordinates of tips in 'hclust' and Ploth() plots;
Pleiad() and its documentation slightly corrected;
in Saynodynamite(), color is now simply "red";
help files improved;
Ditto() improved;
some corrections for R-4;
Ploth() improved to change, e.g., label font;
Misclass() corrected in case if there are more predicted than observed classes;
Misclass(..., best=TRUE) now uses recursive .permutations() modified from gtools package, it allowed to increase the maximal number of classes from 7 to 8 ;)
shipunov 1.7:
Plot.phylocl() now allows 'cex' for all labels;
function Peaks() removed as it was not really useful;
Biarrows() improved;
seq_len() or seq_along() used instead of '1:...';
Files() corrected;
Cosine.dist() and Misclass() improved;
Alldups() extended to work with matrices and data frames;
help files improved
shipunov 1.6:
help files improved;
small bug in BootRF() and BootKNN() corrected;
BookKNN() now also handles Dnn();
Gradd(..., what="lines") now also plots decision boundaries;
help(Gradd) simplified and two packages removed from "Suggested";
functions Co.test() and Is.tax.inform.char() removed as very simple and rarely used;
compatibility established with new R 'stringsAsFactors=TRUE';
new function Biarrows() to make biplot from any dimension reduction;
Plot.phylocl() can now keep monotypic clades.
shipunov 1.5:
Class.sample() now handles proportion and has uniform sampling option;
Rows() renamed into Pull();
Adj.Rand() can now use NAs;
help files improved;
plot.nnet() removed as it is now available as NeuralNetTools::plotnet();
Dev() removed as it is simple without function (see ?BootKNN and ?BootRF);
BootRF() improved;
help keywords updated;
Life() has now interactive mode;
Dotchart1() updated with new version from base R;
Miney() code completely re-worked;
DNN() can now use self-training.
shipunov 1.4:
Fill() improved;
new Ditto() function (reverse Fill());
Biokey() and Numranks() improved;
help files improved;
new Rows() function;
R() renamed into R.logo();
Life() improved;
Rpart2newick() and Biokey() now keep node labels;
MrBayes() changed after new version of ips package
shipunov 1.3:
Gradd() bug corrected;
VTcoeffs() improved;
Numranks() improved;
help files improved;
new "%-%" a.k.a. "minus names" function;
new Dnn() function;
new Rpart2newick() function;
new Cosine.dist() function;
MRH() updated;
Recode*() functions improved;
Bclust() improved
shipunov 1.2:
new Fill() function;
datasets are now integrated;
new MRH() function;
new "chaetocnema" and "haltica" datasets;
Ellipses() extended;
Points() and PPoints() extended;
new DNN() function for distance matrix based kNN;
new S.value() function;
K() and Misclass() extended;
MrBayes() extended to handle mixed analysis;
help files improved;
new Biokey() and Numranks() functions;
new datasets "plantago", "classifs" and "keys"
shipunov 1.1:
option "mad" added for pairwise.Eff();
Gen.cl.data() function to generate "scikit-learn"-like examples;
Misclass() is now able to search for the best table;
new Class.sample() function;
new Classproj() function;
Hulls(..., outliers=FALSE) now plots smoothed convex hulls and outputs outliers;
Overlap(..., Hulls=FALSE) might use non-Hulls() object;
Overlap2() removed;
new BestOverlap() function;
help files improved;
new Bclust() function and its allies;
new Updist() function;
Misclass(..., quiet=TRUE) now suppresses output;
'Rresults' script improved;
new Root1() function;
Draw.arrow() removed;
Histp() removed()
shipunov 1.0:
first release