R for Starters, v0.57721

The Functions

One of the greatest things about R is the ability to extend its native abilities by writing your own functions. This page provides several functions I have created to make analyses a bit easier. To use these functions in your analysis, you just need to include (and run) the line source("URL") near the top of your script. Replace URL in the source function with the URL of the function below.

Accuracy Functions
	accuracy	Accuracy calculation
	25-Oct-11	https://rfs.kvasaheim.com/Rfctns/accuracy.R
	fnr	False negative rate
	25-Oct-11	https://rfs.kvasaheim.com/Rfctns/fnr.R
	fpr	False positive rate
	25-Oct-11	https://rfs.kvasaheim.com/Rfctns/fpr.R
	F1score	The F1 measure of accuracy
	25-Oct-11	https://rfs.kvasaheim.com/Rfctns/F1score.R
	Fscore	The F measure of accuracy
	25-Oct-11	https://rfs.kvasaheim.com/Rfctns/Fscore.R
	MCC	The Matthews correlation coefficient
	25-Oct-11	https://rfs.kvasaheim.com/Rfctns/MCC.R
	odds.ratio	Odds ratio
	26-Aug-11	https://rfs.kvasaheim.com/Rfctns/odds.ratio.R
	phi.coef	Phi coefficient
	26-Aug-11	https://rfs.kvasaheim.com/Rfctns/phi.coef.R
	precision	Precision of a prediction
	31-Jul-11	https://rfs.kvasaheim.com/Rfctns/precision.R
	recall	Recall rate
	26-Aug-11	https://rfs.kvasaheim.com/Rfctns/recall.R
Plotting functions
	curly.brace	Plotting function to easily plot braces
	30-Jan-14	https://rfs.kvasaheim.com/Rfctns/curly.brace.R
	binom.plot	One way of plotting categorical data with errors shown (v2.0)
	11-Nov-14	https://rfs.kvasaheim.com/Rfctns/binom.plot.R
	graphShade	Meaningfully shading areas of pdf and CDF plots
	18-Jun-13	https://rfs.kvasaheim.com/Rfctns/graphShade.R
	histb2b	Create back-to-back histograms
	24-Jun-15	https://rfs.kvasaheim.com/Rfctns/histb2b.R
	histb2b2	Create back-to-back histograms (minor update)
	20-Apr-16	https://rfs.kvasaheim.com/Rfctns/histb2b2.R
	histogram	Create better-looking histograms
	26-May-14	https://rfs.kvasaheim.com/Rfctns/histogram.R
	normoverlay	Overlays a histogram with a Normal density function
	29-Mar-15	https://rfs.kvasaheim.com/Rfctns/normoverlay.R
	placeFlag	Routine to plot a flag on your graphic.
	13-Jan-17	https://rfs.kvasaheim.com/Rfctns/placeFlag.R
	sectorPlot	Create sector plots
	1-Jul-13	https://rfs.kvasaheim.com/Rfctns/sectorPlot.R
Utility functions
	bayes.law	Uses Bayes Law to calculate disease probability
	7-May-14	https://rfs.kvasaheim.com/Rfctns/bayes.law.R
	conf.bounds	Confidence band calculation function
	4-Apr-17	https://rfs.kvasaheim.com/Rfctns/conf.bounds.R
	cor	Correlations within a dataframe
	25-Oct-11	https://rfs.kvasaheim.com/Rfctns/cor.R
	cv	Calculate the coefficient of variation
	3-Jun-15	https://rfs.kvasaheim.com/Rfctns/cv.R
	drop.rownames	Returns a dataframe less the specified rownames
	11-Mar-15	https://rfs.kvasaheim.com/Rfctns/drop.rownames.R
	getPermutations	Get all permutations on n values
	10/11/13	https://rfs.kvasaheim.com/Rfctns/getPermutations.R
	kurtosis	Calculate the sample excess kurtosis
	3-Jun-15	https://rfs.kvasaheim.com/Rfctns/kurtosis.R
	links	Ten bijective transformations to use as link functions
	25-Oct-11	https://rfs.kvasaheim.com/Rfctns/links.R
	make.link	Extension to the make.link() function {stats}. This was updated to reflect the R v3 update
	22-Apr-15	https://rfs.kvasaheim.com/Rfctns/make.link.R
	means	Calculates arithmetic, geometric, and harmonic means
	19-Dec-12	https://rfs.kvasaheim.com/Rfctns/means.R
	modal	Calculates the mode of a variable
	2-Jan-14	https://rfs.kvasaheim.com/Rfctns/modal.R
	model.fit	Several model comparison measures
	24-Nov-11	https://rfs.kvasaheim.com/Rfctns/model.fit.R
	quartile	Helper function to provide the quartiles of a variable.
	13-Jan-17	https://rfs.kvasaheim.com/Rfctns/quartile.R
	separateData	Split the data into train, test, and evaluation parts
	20-Apr-15	https://rfs.kvasaheim.com/Rfctns/separateData.R
	set.base	Change the base level in a factor
	31-Jul-11	https://rfs.kvasaheim.com/Rfctns/set.base.R
	skew	Calculate the sample skew using the unbiased estimator
	3-Jun-15	https://rfs.kvasaheim.com/Rfctns/skew.R
	summaryHCE	Provide the Huber-White adjustment to the standard errors
	30-Mar-15	https://rfs.kvasaheim.com/Rfctns/summaryHCE.R
	summaryVIFA	Provide a VIF-adjusted regression table
	13-Aug-13	https://rfs.kvasaheim.com/Rfctns/summaryVIFA.R
	tapd	Total Absolute Proportion Deviation, a measure of dispersion for categorical variables
	30-Dec-16	https://rfs.kvasaheim.com/Rfctns/tapd.R
	trace	Calculates the trace of a square matrix
	6-Apr-17	https://rfs.kvasaheim.com/Rfctns/trace.R
	zscore	Calculate the z-score for a value over a sample.
	5-Jan-17	https://rfs.kvasaheim.com/Rfctns/zscore.R
Statistical tests
	forsberg.test	Omnibus null test
	18-Jan-15	https://rfs.kvasaheim.com/Rfctns/forsberg.test.R
	hildebrand.rule	Determines if the data are skewed according to Hildebrand (1986)
	10-Apr-16	https://rfs.kvasaheim.com/Rfctns/hildebrand.rule.R
	HL.gof	Hosmer and Lemeshow goodness of fit measure
	25-Oct-11	https://rfs.kvasaheim.com/Rfctns/HL.gof.R
	onevar.test	Confidence interval and hypothesis test for the variance of a single population.
	27-Feb-17	https://rfs.kvasaheim.com/Rfctns/onevar.test.R
	shapiroTest	This tests Normality across several levels of a grouping variable
	16-Oct-15	https://rfs.kvasaheim.com/Rfctns/shapiroTest.R
	t.test.sst	Perform a one- or two-sample t-test from summary statistics
	1-Jul-13	https://rfs.kvasaheim.com/Rfctns/t.test.sst.R
	tukey.var.test	An equality of variance test as suggested by Tukey
	15-Sep-14	https://rfs.kvasaheim.com/Rfctns/tukey.var.test.R
	z.test	The infamous z-test
	31-Jul-11	https://rfs.kvasaheim.com/Rfctns/z.test.R