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VGAM (version 0.8-5)

Vector Generalized Linear and Additive Models

Description

Vector generalized linear and additive models, and associated models (Reduced-Rank VGLMs, Quadratic RR-VGLMs, Reduced-Rank VGAMs). This package fits many models and distribution by maximum likelihood estimation (MLE) or penalized MLE. Also fits constrained ordination models in ecology.

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Version

Install

install.packages('VGAM')

Monthly Downloads

43,625

Version

0.8-5

License

GPL-2

Maintainer

Thomas Yee

Last Published

February 22nd, 2012

Functions in VGAM (0.8-5)

Generalized Poisson distribution

get.smart.prediction

Retrieves ``.smart.prediction''

Index from Array to Matrix

The Inverse Lomax Distribution

Exponential Poisson Distribution Family Function

Fitting a Dirichlet-Multinomial Distribution

The Frechet Distribution

General Electric and Westinghouse Data

1-parameter Gamma Distribution

Harvard University Numbers of Ladder Faculty by School and Ethnicity

Generalized Gamma distribution family function

Harvard University Degrees Conferred by Student Ethnicity

Mixture of Two Univariate Normal Distributions

The Exponential Logarithmic Distribution

Huber's least favourable distribution family function

Double Exponential Binomial Distribution Family Function

The Generalized Rayleigh Distribution

2008 Summer Olympic Final Medal Count Data

Freund's (1961) Bivariate Extension of the Exponential Distribution

Generalized Extreme Value Distribution Family Function

model.matrixvlm

Construct the Design Matrix of a VLM Object

Michaelis-Menten Model

Row-Column Association Models including Goodman's RC Association Model

Generalized Pareto Distribution Family Function

Rice Distribution Family Function

Folded Square Root Link Function

Perspective plot for QRR-VGLMs

Haight's Zeta Function

Log-gamma Distribution Family Function

Gumbel's Type I Bivariate Distribution Family Function

Creates a Matrix of Appropriate Dimension

Hunting Spider Data

The Lambert W function

Huggins (1991) Capture-recapture Model Family Function (approximation only)

Main effects plot for a Row-Column Association Model (RCAM)

Invparalogistic

The Inverse Paralogistic Distribution

The Folded-Normal Distribution

The Fisk Distribution

Identity Link Function

Erlang Distribution

Lognormal Distribution

Hypergeometric Family Function

The Felix Distribution

Positive Negative Binomial Distribution Family Function

Gamma Hyperbola Bivariate Distribution

Hunua Ranges Data

Folded Normal Distribution Family Function

Gaussian (normal) Family Function

Mixture of Two Poisson Distributions

The Rice Distribution

The Dirichlet distribution

Generalized Rayleigh Distribution Family Function

Exponential Geometric Distribution Family Function

Nakagami Distribution Family Function

Hyperbolic Secant Distribution Family Function

Farlie-Gumbel-Morgenstern's Bivariate Distribution Family Function

F Distribution Family Function

Response variable extracted

Prentice (1974) Log-gamma Distribution

Fitting a Dirichlet-Multinomial Distribution

Expectiles-Exponential

Expectiles of the Exponential Distribution

GARMA (Generalized Autoregressive Moving-Average) Models

LMS Quantile Regression with a Yeo-Johnson Transformation to Normality

Log link function

Fitted Values of a VLM object

The Log-Gamma Distribution

Control Function for UQO models

The Rayleigh Distribution

Gamma-Ordinal Link Function

McCullagh (1989) Distribution Family Function

Fisher's Z Link Function

Frank's Bivariate Distribution Family Function

Toxicity trial for insects

Expectiles-Uniform

Expectiles of the Uniform Distribution

Gumbel Distribution Family Function

Zero-Altered Poisson Distribution

Reciprocal Inverse Gaussian distribution

Acute Myelogenous Leukemia Survival Data

Exponentiated Exponential Distribution

The Exponential Geometric Distribution

Density Plot for LMS Quantile Regression

Generalized Beta Distribution of the Second Kind

The Log-Laplace Distribution

Returns Important Matrices etc. of a QO Object

Retrieve One Component of ``.smart.prediction''

The Benini Distribution

Defining smooths in VGAM formulae

A Short-tailed Symmetric Distribution

Loglinear Model for Three Binary Responses

Simplex Distribution Family Function

Zero-Inflated Negative Binomial Distribution

The Maxwell Distribution

Log link function with an offset

calibrate-methods

Calibration for Constrained Regression Models

Exponential Logarithmic Distribution Family Function

2-parameter Gamma Distribution

Negative binomial canonical link function

Wald Distribution Family Function

The Generalized Pareto Distribution

Beta Distribution of the Second Kind

Exponential Link Function

notdocumentedyet

Undocumented and Internally Used Functions and Classes

von Mises Distribution Family Function

Mark the Baseline of Row and Column on a Matrix data

Fitting Vector Generalized Additive Models

Test For a Smart Object

Mixture of Two Exponential Distributions

2008 World Fly Fishing Championships (Team results) Data

The Exponential Poisson Distribution

Expectiles-Normal

Expectiles of the Normal Distribution

Low-iron Rat Teratology Data

Beta-geometric Distribution Family Function

Pareto(IV/III/II) Distribution Family Functions

LMS Quantile/Expectile Regression with a Box-Cox Transformation to Normality

The Laplace Distribution

Leipnik Distribution Family Function

Poisson-points-on-a-plane/volume Distances Distribution

The Poisson Lognormal Distribution

Fitting Reduced-Rank Vector Generalized Linear Models (RR-VGLMs)

Zero-Inflated Poisson Distribution (Yip (1988) algorithm)

Pneumoconiosis in Coalminers Data

Determine What Mode the Smart Prediction is In

Inverse Binomial Distribution Family Function

Ordinal Regression with Adjacent Categories Probabilities

Ordinal Regression with Continuation Ratios

Huber's least favourable distribution

Generalized Beta Distribution Family Function

Bivariate Probit Model (Family Function)

Plackett's Bivariate Distribution

Ordinal Poisson Family Function

Koenker's Distribution Family Function

The Lomax Distribution

Complementary-log Link Function

Toxoplasmosis Data

Zero-Inflated Poisson Distribution Family Function

Log-log Link Function

Morgenstern's Bivariate Distribution Family Function

Mean Excess Plot

Smart Prediction Setup

negbinomial.size

Negative Binomial Distribution Family Function With Known Size

Minimizing the L-q norm Family Function

Zero-Altered Geometric Distribution

Cross-sectional Data from the New Zealand Population

The Generalized Extreme Value Distribution

Positive-Binomial Distribution

Return Level Plot for GEV Fits

Geometric Distribution

Grain Prices Data in USA

Logarithmic Distribution

Exponentiated Exponential Distribution

Inverse Gaussian Distribution Family Function

Venice Maximum Sea Levels Data

Log-Laplace and Logit-Laplace Distribution Family Functions

Data on Back Pain Prognosis, from Anderson (1984)

Complementary Log-log Link Function

Positive-geometric Distribution

The Kumaraswamy Distribution

Oxford Temperature Data

Probit Link Function

Reciprocal link function

rrvglm.optim.control

Control function for rrvglm() calling optim()

The Gumbel Distribution

Paralogistic Distribution Family Function

Expectiles-Koenker

Expectiles/Quantiles of the Koenker Distribution

Latent Variables

Construct the Model Frame of a VLM Object

Redirects the user to rrvglm

Laplace Distribution

Loglinear Model for Two Binary Responses

Pareto and Truncated Pareto Distribution Family Functions

Trajectory plot for QRR-VGLMs

Asymmetric Laplace Distribution Family Functions

Cardioid Distribution

Control function for rrvglm

Levy Distribution Family Function

Positive-Poisson Distribution

Exponential Regression by Asymmetric Maximum Likelihood Estimation

Poisson Family Function

plotdeplot.lmscreg

Density Plot for LMS Quantile Regression

Control Function for RR-VGAMs (CAO)

The Matched Binomial Distribution Family Function

LMS Quantile Regression with a Box-Cox transformation to a Gamma Distribution

Likelihood Ratio Test of Nested Models

Latent Variable Plot for QO models

Probability Plots for Categorical Data Analysis

The Skellam Distribution

Point System for the 2008 World Fly Fishing Championships

Student t Distribution

The Birnbaum-Saunders Distribution

Constrained (Canonical) Coefficients

calibrate.qrrvglm

Calibration for CQO, UQO and CAO models

Zero-Altered Geometric Distribution

Vector cubic smoothing spline

Ali-Mikhail-Haq Distribution Distribution Family Function

Cumulative Distribution Function for LMS Quantile Regression

Cleans Up After Smart Prediction

Zero-Altered Binomial Distribution

The Laplace Distribution

Coef.rrvglm-class

Class ``Coef.rrvglm''

Univariate Normal Distribution

Benford's Distribution

The Zipf Distribution

The MNSs Blood Group System

Beta-binomial Distribution Family Function

Quasi-Poisson Family Function

Bivariate Binary Regression with an Odds Ratio (Family Function)

Quantile Plot for Gumbel Regression

The Two-stage Sequential Binomial Distribution Family Function

Skew-Normal Distribution

Rutherford-Geiger Polonium Data

Bivariate Gamma: McKay's Distribution

Dagum Distribution Family Function

Extract Model Coefficients for VLM Objects

calibrate.qrrvglm.control

Control function for CQO/UQO/CAO calibration

Proportional Odds Model for Ordinal Regression

Extract Model Constrained/Canonical Coefficients

Censored Poisson Family Function

Nested reduced-rank autoregressive models for multiple time series

Predict Method for a CQO fit

Negative Binomial Distribution Family Function

Logit Link Function

Returns Important Matrices etc. of a RR-VGLM Object

Upper Record Values from a 1-parameter Exponential Distribution

Power Link Function

Model Diagnostic Plots for QRR-VGLMs

Univariate Skew-Normal Distribution Family Function

2008 World Fly Fishing Championships (Individual results) Data

The AA-Aa-aa Blood Group System

The Beta-Prime Distribution

Ordinal Regression with Stopping Ratios

Constrained Quadratic Ordination

Positive Binomial Distribution Family Function

smart.expression

S Expression for Smart Functions

The Triangle Distribution

Waitakere Ranges Data

undocumented-methods

Undocumented Methods Functions

Exchangeable bivariate cloglog odds-ratio model from a zero-inflated Poisson distribution

2-parameter Gamma Distribution

The Positive-Normal Distribution

Fitting a Dirichlet Distribution

Negative Binomial-Ordinal Link Function

The zero Argument in VGAM Family Functions

Exponential Distribution

The Inverse Gaussian Distribution

Singh-Maddala Distribution Family Function

Smart Prediction

Zero-Altered Negative Binomial Distribution

Fitting Vector Generalized Linear Models

Biplot of Constrained Regression Models

Quasi-variances Preprocessing Function

Zeta Distribution Family Function

Upper Record Values from a Univariate Normal Distribution

quasibinomialff

Quasi-Binomial Family Function

Huggins (1991) Capture-recapture Model

Positive Poisson Distribution Family Function

Fitting Constrained Quadratic Ordination (CQO)

plotvgam.control

Control Function for plotvgam()

Cauchy Distribution Family Function

Create a Survival Object

Estimated Crime in 2009 in USA

Latent Variable Plot for RR-VGLMs

Yule-Simon Family Function

Binomial Logistic Regression by Asymmetric Maximum Likelihood Estimation

Borel-Tanner Distribution Family Function

Poisson-Ordinal Link Function

Fitting Unconstrained Quadratic Ordination (UQO)

Auckland University Undergraduate Counts Data

Adds a List to the End of the List ``.smart.prediction''

Predict Method for a VGLM fit

Yeo-Johnson Transformation

Zero-Inflated Binomial Distribution

Bradley Terry Model With Ties

Slash Distribution Family Function

qrrvglm.control

Control function for QRR-VGLMs (CQO)

Class ``vglmff''

Bivariate Logistic Distribution

Censored Gumbel Distribution

2008 World Fly Fishing Championships Data

Censored Normal Distribution

Marginal effects for the multinomial logit and cumulative models

Undergraduate Statistics Students Lifestyle Questionnaire

Chinese Population in New Zealand 1867--2001 Data

The AB-Ab-aB-ab2 Blood Group System

Rhobit Link Function

Control function for vglm

Body Mass Index of New Zealand Adults Data

Constraint Matrices

The Two-parameter Beta Distribution Family Function

Zero-Inflated Geometric Distribution

Zero-Inflated Negative Binomial Distribution Family Function

Prior and Working Weights of a VGLM fit

The AB-Ab-aB-ab Blood Group System

The Beta-Normal Distribution

Zero-Altered Negative Binomial Distribution

The Beta-Geometric Distribution

Zero-Altered Binomial Distribution

Riemann's Zeta Function

Yule-Simon Distribution

Weibull Distribution Family Function

Inputting Data to fit a Bradley Terry Model

Chi-squared Distribution

Akaike's Information Criterion

Computes Model Coefficients and Quantities

Binomial Family Function

Zero-Inflated Poisson Distribution

Zero-Inflated Binomial Distribution Family Function

Coef.qrrvglm-class

Class ``Coef.qrrvglm''

Asymmetric Least Squares Quantile Regression

Poisson Regression by Asymmetric Maximum Likelihood Estimation

betabinomial.ab

Beta-binomial Distribution Family Function

Link functions for VGLM/VGAM/etc. families

Bivariate Logistic Distribution Family Function

The ABO Blood Group System

Model Calibrations

The G1G2G3 Blood Group System

Vector Generalized Linear and Additive Models

Ordinal Regression with Cumulative Probabilities

Cardioid Distribution Family Function

Univariate Normal Distribution with Double Censoring

The Borel-Tanner Distribution

DeLury's Method for Population Size Estimation

The Two-parameter Beta Distribution Family Function

Chest Pain in NZ Adults Data

The Generalized Gamma Distribution

Harvard University International Enrollments

Logarithmic Distribution

Logistic Distribution Family Function

Latent Variable Plot

New Zealand Marital Data.

Multinomial Logit Model

Positive-Negative Binomial Distribution

Positive Normal Distribution Family Function

Quantile Plot for LMS Quantile Regression

The Truncated Pareto Distribution

Zero-Altered Poisson Distribution

Zero-Inflated Geometric Distribution Family Function

Bivariate normal distribution

Fitting Constrained Additive Ordination (CAO)

Cauchit Link Function

Redirects the user to cqo

Lerch Phi Function

plotqtplot.lmscreg

Quantile Plot for LMS Quantile Regression

Default VGAM Plotting

Class ``rrvglm''

Trajectory Plot

Control function for vgam

2008 World Fly Fishing Championships (Number of captures) Data

The Pareto Distribution

The Beta-Binomial Distribution

CommonVGAMffArguments

Common VGAM family function Arguments

Breathlessness and Wheeze Amongst Coalminers Data

Crashes on New Zealand Roads in 2009