A Collection of Efficient and Extremely Fast R Functions II

Documentation for package ‘Rfast2’ version 0.1.1

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A B C D E F G H I J K L M N O P Q R S T U V W Z

Rfast2-package

Really fast R functions

-- A --

add.term

Add many single terms to a model

-- B --

benchmark	Benchmark - Measure time
beta.nb	Naive Bayes classifiers
betanb.pred	Prediction with some naive Bayes classifiers
bic.regs	BIC of many simple univariate regressions.
big.knn	The k-NN algorithm for really lage scale data
bigknn.cv	Cross-validation for the k-NN algorithm for really lage scale data
binom.reg	Binomial regression
boot.hotel2	Bootstrap James and Hotelling test for 2 independent sample mean vectors
boot.james	Bootstrap James and Hotelling test for 2 independent sample mean vectors
boot.student2	Bootstrap Student's t-test for 2 independent samples
boot.ttest1	One sample bootstrap t-test for a vector

-- C --

cauchy.nb	Naive Bayes classifiers
cauchy0.mle	MLE of the Cauchy and generalised normal distributions with zero location
cauchynb.pred	Prediction with some naive Bayes classifiers
censpois.mle	MLE of the left censored Poisson distribution
censweib.reg	Censored Weibull regression model
censweibull.mle	MLE of the censored Weibull distribution
circ.cor1	Circurlar correlations between two circular variables
circ.cors1	Circurlar correlations between two circular variables
cls	Constrained least squares
cluster.lm	Linear regression with clustered data
col.waldpoisrat	Wald confidence interval for the ratio of two Poisson variables
colbeta.mle	Column-wise MLE of some univariate distributions
colborel.mle	Column-wise MLE of some univariate distributions
colcauchy.mle	Column-wise MLE of some univariate distributions
colGroup	Column-wise summary statistics with grouping variables
colhalfnorm.mle	Column-wise MLE of some univariate distributions
coljack.means	Column and row-wise jackknife sample means
collogitnorm.mle	Column-wise MLE of some univariate distributions
collognorm.mle	Column-wise MLE of some univariate distributions
colmeansvars	Column-wise means and variances of a matrix
colordinal.mle	Column-wise MLE of some univariate distributions
colQuantile	Sample quantiles and col/row wise quantiles
colspml.mle	Column-wise MLE of the angular Gaussian distribution
colTrimMean	Trimmed mean
colunitweibull.mle	Column-wise MLE of some univariate distributions
cor_test	Correlation significance testing using Fisher's z-transformation
covar	Covariance between a variable and a matrix of variables

-- D --

dcora	Distance correlation matrix
depth.mahala	Mahalanobis depth
diffic	Item difficulty and discrimination
discrim	Item difficulty and discrimination

-- E --

embed.circaov	Analysis of variance for circular data
empirical.entropy	Empirical entropy

-- F --

fbed.reg	Forward Backward Early Dropping selection regression
fe.lmfit	Fixed effects regression
fedhc.skel	The skeleton of a Bayesian network produced by the FEDHC algorithm
fipois.reg	Fixed intercepts Poisson regression
fp	Fractional polynomial regression with one independent variable.

-- G --

gammapois.mle	MLE of the gamma-Poisson distribution
gammareg	Gamma regression with a log-link
gammaregs	Many Gamma regressions
gee.reg	GEE Gaussian regression
gnormal0.mle	MLE of the Cauchy and generalised normal distributions with zero location
gumbel.reg	Gumbel regression

-- H --

halfcauchy.mle	MLE of continuous univariate distributions defined on the positive line
hcf.circaov	Analysis of variance for circular data
hellinger.countreg	Hellinger distance based regression for count data
het.circaov	Analysis of variance for circular data
het.lmfit	Heteroscedastic linear models for large scale data
hp.reg	Hurdle-Poisson regression

-- I --

Intersect	Intersect Operation
is.lower.tri	Check if a matrix is Lower or Upper triangular
is.skew.symmetric	Check whether a square matrix is skew-symmetric
is.upper.tri	Check if a matrix is Lower or Upper triangular

-- J --

jack.mean

Jackknife sample mean

-- K --

km	Kaplan-Meier estimate of a survival function
kumar.mle	MLE of distributions defined for proportions

-- L --

laplace.nb	Naive Bayes classifiers
laplacenb.pred	Prediction with some naive Bayes classifiers
leverage	Diagonal values of the Hat matrix
lm.bsreg	backward selection with the F test or the partial correlation coefficient
lm.drop1	Single terms deletion hypothesis testin in a linear regression model
lm.parboot	Parametric bootstrap for linear regression model
logiquant.regs	Many simple quantile regressions using logistic regressions.
logitnorm.nb	Naive Bayes classifiers
logitnormnb.pred	Prediction with some naive Bayes classifiers
lr.circaov	Analysis of variance for circular data
lud	Split the matrix in lower,upper triangular and diagonal

-- M --

mci	Monte Carlo Integration with a normal distribution
Merge	Merge 2 sorted vectors in 1 sorted vector
mle.lda	Maximum likelihood linear discriminant analysis
mmhc.skel	The skeleton of a Bayesian network learned with the MMHC algorithm
mmpc	Max-Min Parents and Children variable selection algorithm for continuous responses
mmpc2	Max-Min Parents and Children variable selection algorithm for non continuous responses
moranI	Moran's I measure of spatial autocorrelation
multinom.reg	Multinomial regression
multinomreg.cv	Cross-validation for the multinomial regression
multispml.mle	MLE of some circular distributions with multiple samples
multivm.mle	MLE of some circular distributions with multiple samples
mv.score.betaregs	Many score based regressions with muliple response variables and a single predictor variable
mv.score.expregs	Many score based regressions with muliple response variables and a single predictor variable
mv.score.gammaregs	Many score based regressions with muliple response variables and a single predictor variable
mv.score.glms	Many score based regressions with muliple response variables and a single predictor variable
mv.score.invgaussregs	Many score based regressions with muliple response variables and a single predictor variable
mv.score.weibregs	Many score based regressions with muliple response variables and a single predictor variable

-- N --

nb.cv	Cross-validation for the naive Bayes classifiers
negbin.reg	Negative binomial regression
negbin.regs	Many negative binomial regressions
normlog.nb	Naive Bayes classifiers
normlognb.pred	Prediction with some naive Bayes classifiers

-- O --

omp2	Orthogonal matching variable selection
overdispreg.test	Score test for overdispersion in Poisson regression

-- P --

pc.sel	Variable selection using the PC-simple algorithm
pca	Principal component analysis
pcr	Principal components regression
perm.ttest2	Permutation t-test for 2 independent samples
pooled.colVars	Column-wise pooled variances across groups
powerlaw.mle	MLE of continuous univariate distributions defined on the positive line
print.benchmark	Benchmark - Measure time
prophelling.reg	Hellinger distance based univariate regression for proportions
propols.reg	Non linear least squares regression for percentages or proportions
purka.mle	MLE of the Purkayashta distribution

-- Q --

Quantile

Sample quantiles and col/row wise quantiles

-- R --

rbeta1	Random values generation from a Be(a, 1) distribution
refmeta	Random effects meta analysis
reg.mle.lda	Regularised maximum likelihood linear discriminant analysis
regmlelda.cv	Cross-validation for the regularised maximum likelihood linear discriminant analysis
riag	Angular Gaussian random values simulation
rowjack.means	Column and row-wise jackknife sample means
rowQuantile	Sample quantiles and col/row wise quantiles
rowTrimMean	Trimmed mean

-- S --

sclr	Scaled logistic regression
score.zipregs	Many score based zero inflated Poisson regressions
simplex.mle	MLE of distributions defined for proportions
sp.logiregs	Many approximate simple logistic regressions.
spml.nb	Naive Bayes classifiers for directional data
spmlnb.pred	Prediction with some naive Bayes classifiers for circular data

-- T --

tobit.reg	Tobit regression
trim.mean	Trimmed mean
trunccauchy.mle	MLE of some truncated distributions
truncexpmle	MLE of some truncated distributions

-- U --

unitweibull.mle

MLE of distributions defined for proportions

-- V --

vm.nb	Naive Bayes classifiers for directional data
vmnb.pred	Prediction with some naive Bayes classifiers for circular data

-- W --

wald.poisrat	Wald confidence interval for the ratio of two Poisson variables
walter.ci	Walter's confidence interval for the ratio of two binomial variables (and the relative risk)
weib.regs	Many simple Weibull regressions.
weibull.nb	Naive Bayes classifiers
weibullnb.pred	Prediction with some naive Bayes classifiers
welch.tests	Many Welch tests.

-- Z --

zigamma.mle	MLE of the zero inflated Gamma and Weibull distributions
zigamma.reg	Zero inflated Gamma regression
zil.mle	MLE of distributions defined for proportions
ziweibull.mle	MLE of the zero inflated Gamma and Weibull distributions
ztp.reg	Zero truncated Poisson regression