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shipunov (version 1.0)

Miscellaneous Functions from Alexey Shipunov

Description

A collection of functions for data manipulation, plotting and statistical computing, to use separately or with the book "Visual Statistics. Use R!": Shipunov (2019) .

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Version

Install

install.packages('shipunov')

Monthly Downloads

337

Version

1.0

License

GPL (>= 2)

Maintainer

Alexey Shipunov

Last Published

April 1st, 2019

Functions in shipunov (1.0)

Adj.Rand

Adjusted Rand index
Coeff.det

Average coefficients of determination for each variable
Ex.font

Examples of fonts
Files

Textual filesystem browser
BootKNN

Bootstrap with kNN
BootRF

Bootstrap with 'randomForest()'
Ex.lty

Examples of line types
Infill

Rarefaction curves
Alldups

Finds all duplicates
Coml

Compare checklists
Is.tax.inform.char

Taxonomic informativeness
Cor

Correlation matrix with p-values
Cdate

System date, time plus easy save history
Ex.col

Examples of colors
Ex.boxplot

Boxplot explanation
Cladd

Adds confidence bands to the simple linear model plots
Boxplots

Grouped boxplots
Dotchart

Improved dotcharts
Draw.arrow

Add arrow to the plot interactively
Ex.margins

Example of plot margins
BootA

Bootstrap clustering
Ex.pch

Point examples
Linechart

Dotchart-like plot sfor every scaled variable grouped by factor
Ploth

Changes the appearance of cluster dendrogram
Points

Number of cases in each location reflected in the point size
Rostova.tbl

Calculates multiple correlation matrices (via 'factor1') and stacks them together
CVs

Coefficients of variation
Life

Game of Life
Ell

Plot ellipse
Cor.vec

Calculates correlation and converts results into the named long vector
Gradd

Classification grid
Dev

Which object is predicted with less accuracy?
MrBayes

Calls MrBayes
K

Coefficient of divergence
Jclust

Simple bootstrap and jackknife clustering
Normality

Check normality
Plot.phylocl

Plot phylogenetic tree with clades collapsed
PlotBest.dist

Plots dotchart with best base distance method
PlotBest.hclust

Plots dotchart with best clustering method
Rresults

Rresults shell script
Ellipses

Groups' confidence ellipses
Histr

Histogram with overlaid curve
Gap.code

Gap coding
Xpager

Separate terminal pager for Linux
Read.fasta

Read 'FASTA' files
R

Imitation (!) of the modern 'R' logo
PlotBest.mdist

Plots dotchart with best distance method, use multiple non-base distances
Gridmoon

Draw with 'R'
Hulls

Groups' hulls
Toclip

Insert content to Linux X11 clipboard
Ls

Ls
MDSv

MDS: explained variance (surrogate)
plot.nnet

Plots 'nnet' object
pairwise.Eff

Pairwise table of effects with magnitudes
Gower.dist

Gower distance
Overlap

Polygons' overlap
Misclass

Misclassification (confusion) table
Phyllotaxis

Plant phyllotaxis
Missing.map

Textual plot of missing data
Peaks

Find local maxima
Hclust.match

Counts matches between two hierarchical clusterings
Histp

Histogram with percents
Mag

Interpreter for effect sizes
Topm

Stacks correlation matrix
Miney

Miney game
Read.tri.nts

Read 'NTSYSpc' files
Squares

Polygons' squares
Str

'str()' enchanced for data frames
Recode

Basic multiple recoding (similar to 'SQL' left join)
VTcoeffs

Effect sizes of association between categorical variables
Pleiad

Correlation circles (correlation pleiads)
Table2df

Convert table to data frame saving structure
Tobin

Binarize (make dummy variables)
Write.fasta

Write 'FASTA' files
Rro.test

Robust rank order test
Saynodynamite

Say ``no'' to dynamite plots!
pairwise.Table2.test

Pairwise Chi-squared or Fisher test for 2-dimensional tables
pairwise.Rro.test

Robust rank order test post hoc derivative
Aggregate1

Aggregates by one vector and uses it for row names
Co.test

Correlation test between cophenetic and original distances
Ex.plots

Examples of plot types