shipunov1.17.1 package

Miscellaneous Functions from Alexey Shipunov

Adjusted Rand index

Aggregates by one vector and uses it for row names

Finds all duplicates

Plot bootstrap values

Bootstrapped hclust

Calculates the best overlap

Adds correlation arrows to the scatterplot

Convert diagnostic keys and classification lists

Bootstrap clustering

Bootstrap with kNN

Bootstrap with 'randomForest()'

Grouped boxplots

System date, time plus easy save history

Adds confidence bands to the simple linear model plots

Samples along the class labels

Class projection

Clustergram: visualize the cluster structure

Average coefficients of determination for each variable

Compare checklists

Correlation matrix with p-values

Calculates correlation and converts results into the named long vector

Coefficients of variation

Removes duplicated data values downstream

Distance matrix based kNN classification

Improved dotcharts

Plot ellipse

Confidence ellipses

Boxplot explanation

Examples of colors

Examples of fonts

Examples of line types

Example of plot margins

Point examples

Examples of plot types

Colorize tips of 'hclust' plot

Textual file system browser

Fill data values downstream, like in spreadsheets

Gap coding

Generates datasets for clustering

Compute the simple Gini coefficient

Gower distance

Classification grid and decision boundaries

Draw with 'R'

Clustering to matrix

Counts matches between two hierarchical clusterings

Calculates coordinates of nodes from 'hclust' plot

Histogram with overlaid curve

Convex hulls for multiple groups

Rarefaction curves

Simple bootstrap and jackknife clustering

Coefficient of divergence

Game of Life

Dotchart-like plot sfor every scaled variable grouped by factor

Ls

Interpreter for effect sizes

MDS: dimension importance ("explained variance" surrogate)

Miney game

Minus names

Misclassification (confusion) table

Textual plot of missing data

Calls MrBayes

Matrix Representation of Hierarchical Clustering

Normalized Compression Distance

Check normality

Calculates overlap between polygons

Pairwise table of effects with magnitudes

Robust rank order test post hoc derivative

Pairwise Chi-squared or Fisher test for 2-dimensional tables

Plant phyllotaxis

Point in hull

Correlation circles (correlation pleiads)

Plot phylogenetic tree with clades collapsed

Dotchart which reflects the "best" base distance method

Plots dotchart with best clustering method

Dotchart which reflects the "best" of non-base distances

Changes the appearance of cluster dendrogram

Number of cases in each location reflected in the point size

Area of the polygon

Center of the polygon

Select rows from data frame

Imitation (!) of the modern 'R' logo

Read 'FASTA' files

Read 'NTSYSpc' files

Basic multiple recoding

Roots phylogenetic trees even if outgroup is not monophyletic

Calculates multiple correlation matrices (via 'factor1') and stacks th...

Converts 'rpart' object into Newick tree

Rresults shell script

Robust rank order test

S-value

salix_leaves

Say ``no'' to dynamite plots!

Simple Match distance

Areas of polygons

'str()' enchanced for data frames

Convert table to data frame saving structure

Calculates coordinates of tips from 'hclust' plot

Easy way to add text labels to 'hclust' plot

Binarize (make dummy variables)

Insert content to Linux X11 clipboard

Stacks correlation matrix

Text-to-columns

Educated distances for semi-supervised clustering

Arrange observations by the distance from center

Effect sizes of association between categorical variables

Write 'FASTA' files

Separate terminal pager for Linux

A collection of functions for data manipulation, plotting and statistical computing, to use separately or with the book "Visual Statistics. Use R!": Shipunov (2020) <http://ashipunov.info/shipunov/software/r/r-en.htm>. Dr Alexey Shipunov died in December 2022. Most useful functions: Bclust(), Jclust() and BootA() which bootstrap hierarchical clustering; Recode() which does multiple recoding in a fast, simple and flexible way; Misclass() which outputs confusion matrix even if classes are not concerted; Overlap() which measures group separation on any projection; Biarrows() which converts any scatterplot into biplot; and Pleiad() which is fast and flexible correlogram.

Maintainer: ORPHANED License: GPL (>= 2) Last published: 2023-02-05