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VGAM (version 0.8-4.1)

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

53,958

Version

0.8-4.1

License

GPL-2

Maintainer

Thomas Yee

Last Published

February 18th, 2012

Functions in VGAM (0.8-4.1)

The Singh-Maddala Distribution

The Inverse Lomax Distribution

Vector Generalized Linear and Additive Models

Inputting Data to fit a Bradley Terry Model

The Pareto(IV/III/II) Distributions

The Fisk Distribution

Quasi-variances Preprocessing Function

The Borel-Tanner Distribution

The ABO Blood Group System

Extract Model Coefficients for VLM Objects

The Dagum Distribution

Bivariate Logistic Distribution Family Function

CommonVGAMffArguments

Common VGAM family function Arguments

Body Mass Index of New Zealand Adults Data

Censored Poisson Family Function

Binomial Logistic Regression by Asymmetric Maximum Likelihood Estimation

Beta-binomial Distribution Family Function

The AB-Ab-aB-ab Blood Group System

The Pareto Distribution

Breathlessness and Wheeze Amongst Coalminers Data

Mark the Baseline of Row and Column on a Matrix data

The Laplace Distribution

The Birnbaum-Saunders Distribution

The Beta-Binomial Distribution

The AA-Aa-aa Blood Group System

Poisson Regression by Asymmetric Maximum Likelihood Estimation

Data on Back Pain Prognosis, from Anderson (1984)

Constrained (Canonical) Coefficients

Benini Distribution Family Function

Exponential Regression by Asymmetric Maximum Likelihood Estimation

Extract Model Constrained/Canonical Coefficients

Cumulative Distribution Function for LMS Quantile Regression

The Rayleigh Distribution

The MNSs Blood Group System

Borel-Tanner Distribution Family Function

Censored Normal Distribution

Ali-Mikhail-Haq Distribution Distribution Family Function

DeLury's Method for Population Size Estimation

Bivariate Probit Model

Returns Important Matrices etc. of a QO Object

Bivariate Logistic Distribution

Double Exponential Binomial Distribution Family Function

Bivariate Binary Regression with an Odds Ratio

Asymmetric Laplace Distribution Family Functions

The G1G2G3 Blood Group System

Chest Pain in NZ Adults Data

The Two-parameter Beta Distribution Family Function

The Paralogistic Distribution

Asymmetric Least Squares Quantile Regression

Cauchy Distribution Family Function

Model Calibrations

Fitting Constrained Additive Ordination (CAO)

The Beta-Normal Distribution

The Beta-Geometric Distribution

Invparalogistic

The Inverse Paralogistic Distribution

Cardioid Distribution Family Function

Density Plot for LMS Quantile Regression

Expectiles-Normal

Expectiles of the Normal Distribution

Akaike's Information Criterion

The AB-Ab-aB-ab2 Blood Group System

Exponentiated Exponential Distribution

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

Fitting a Dirichlet-Multinomial Distribution

F Distribution Family Function

Returns Important Matrices etc. of a RR-VGLM Object

The Felix Distribution

Constraint Matrices

Coef.rrvglm-class

Class ``Coef.rrvglm''

Ordinal Regression with Cumulative Probabilities

Computes Model Coefficients and Quantities

Auckland University Undergraduate Counts Data

Frechet Distribution Family Function

betabinomial.ab

Beta-binomial Distribution Family Function

The Lomax Distribution

Generalized Poisson distribution

Generalized Beta Distribution of the Second Kind

Censored Gumbel Distribution

Ordinal Regression with Adjacent Categories Probabilities

Benford's Distribution

calibrate.qrrvglm

Calibration for CQO, UQO and CAO models

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

Coef.qrrvglm-class

Class ``Coef.qrrvglm''

Folded Normal Distribution Family Function

Complementary Log-log Link Function

Redirects the user to cqo

Expectiles-Uniform

Expectiles of the Uniform Distribution

The Inverse Gaussian Distribution

Create a Survival Object

Exponential Logarithmic Distribution Family Function

Biplot of Constrained Regression Models

get.smart.prediction

Retrieves ``.smart.prediction''

Beta-geometric Distribution Family Function

The Folded-Normal Distribution

Univariate Normal Distribution with Double Censoring

The Beta-Prime Distribution

Exponential Poisson Distribution Family Function

The Exponential Poisson Distribution

Farlie-Gumbel-Morgenstern's Bivariate Distribution

The Two-parameter Beta Distribution Family Function

Fitted Values of a VLM object

calibrate-methods

Calibration for Constrained Regression Models

The Log-Gamma Distribution

Exponential Link Function

Exponentiated Exponential Distribution

Haight's Zeta Function

Toxicity trial for insects

Fitting a Dirichlet Distribution

plotqtplot.lmscreg

Quantile Plot for LMS Quantile Regression

Positive Poisson Distribution Family Function

Exponential Geometric Distribution Family Function

2-parameter Gamma Distribution

calibrate.qrrvglm.control

Control function for CQO/UQO/CAO calibration

Chi-squared Distribution

Frank's Bivariate Distribution Family Function

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

1-parameter Gamma Distribution

Identity Link Function

Folded Square Root Link Function

Inverse Gaussian Distribution Family Function

Fitting Constrained Quadratic Ordination (CQO)

Log link function

Generalized Gamma distribution family function

Loglinear Model for Two Binary Responses

Erlang Distribution

Ordinal Regression with Continuation Ratios

The Two-stage Sequential Binomial Distribution Family Function

Cardioid Distribution

The Laplace Distribution

Exponential Distribution

Gaussian (normal) Family Function

LMS Quantile Regression with a Yeo-Johnson Transformation to Normality

Harvard University Degrees Conferred by Student Ethnicity

Laplace Distribution

Minimizing the L-q norm Family Function

Oxford Temperature Data

The Exponential Geometric Distribution

Nakagami Distribution

The Lambert W function

The Generalized Extreme Value Distribution

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

General Electric and Westinghouse Data

Control Function for RR-VGAMs (CAO)

Kumaraswamy Distribution Family Function

Binomial Family Function

Generalized Rayleigh Distribution Family Function

Fisher's Z Link Function

Harvard University Numbers of Ladder Faculty by School and Ethnicity

Gumbel Distribution Family Function

Harvard University International Enrollments

The Generalized Beta Distribution (Libby and Novick, 1982)

Creates a Matrix of Appropriate Dimension

Mixture of Two Poisson Distributions

Log-log Link Function

Beta Distribution of the Second Kind

Positive Negative Binomial Distribution Family Function

Acute Myelogenous Leukemia Survival Data

Logarithmic Distribution

Logistic Distribution Family Function

Hypergeometric Family Function

Leipnik Distribution Family Function

Inverse Binomial Distribution Family Function

Fitting a Dirichlet-Multinomial Distribution

Log-gamma Distribution Family Function

Generalized Pareto Distribution Family Function

Pneumoconiosis in Coalminers Data

Logit Link Function

Morgenstern's Bivariate Distribution Family Function

Expectiles-Exponential

Expectiles of the Exponential Distribution

The Exponential Logarithmic Distribution

2-parameter Gamma Distribution

Latent Variable Plot

The Gumbel Distribution

Ordinal Poisson Family Function

Triangle Distribution Family Function

Bradley Terry Model With Ties

Generalized Extreme Value Distribution Family Function

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

The Generalized Rayleigh Distribution

Crashes on New Zealand Roads in 2009

GARMA (Generalized Autoregressive Moving-Average) Models

Gumbel's Type I Bivariate Distribution Family Function

Latent Variable Plot for RR-VGLMs

Redirects the user to rrvglm

Plackett's Bivariate Distribution Family Function

Geometric Distribution

Positive-Binomial Distribution

The Log-Laplace Distribution

Predict Method for a VGLM fit

Lerch Phi Function

Hunting Spider Data

Reciprocal link function

Huber's least favourable distribution

Proportional Odds Model for Ordinal Regression

The Matched Binomial Distribution Family Function

Gamma-Ordinal Link Function

Chinese Population in New Zealand 1867--2001 Data

model.matrixvlm

Construct the Design Matrix of a VLM Object

Huber's least favourable distribution family function

Log link function with an offset

Gamma Hyperbola Bivariate Distribution

Positive Normal Distribution Family Function

Log-Laplace and Logit-Laplace Distribution Family Functions

quasibinomialff

Quasi-Binomial Family Function

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

Determine What Mode the Smart Prediction is In

Positive-Poisson Distribution

Negative Binomial-Ordinal Link Function

Class ``rrvglm''

The Skellam Distribution

The Generalized Pareto Distribution

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

smart.expression

S Expression for Smart Functions

Expectiles-Koenker

Expectiles/Quantiles of the Koenker Distribution

Lognormal Distribution

Upper Record Values from a 1-parameter Exponential Distribution

Rice Distribution Family Function

The Generalized Gamma Distribution

Latent Variables

Quantile Plot for LMS Quantile Regression

Index from Array to Matrix

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

Logarithmic Distribution

Upper Record Values from a Univariate Normal Distribution

Weibull Distribution Family Function

Power Link Function

Maxwell Distribution Family Function

Zero-Inflated Poisson Distribution Family Function

Construct the Model Frame of a VLM Object

Fitting Vector Generalized Additive Models

Mixture of Two Univariate Normal Distributions

Positive Binomial Distribution Family Function

Zero-Inflated Negative Binomial Distribution

Levy Distribution Family Function

Zero-Inflated Geometric Distribution Family Function

Simplex Distribution Family Function

2008 World Fly Fishing Championships Data

Mixture of Two Exponential Distributions

plotdeplot.lmscreg

Density Plot for LMS Quantile Regression

Poisson Family Function

Univariate Normal Distribution

Quasi-Poisson Family Function

Estimated Crime in 2009 in USA

Latent Variable Plot for QO models

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

Skew-Normal Distribution

Zero-Inflated Binomial Distribution

Poisson-Ordinal Link Function

Zero-Altered Negative Binomial Distribution

Michaelis-Menten Model

Multinomial Logit Model

Grain Prices Data in USA

Trajectory plot for QRR-VGLMs

New Zealand Marital Data.

Predict Method for a CQO fit

Pareto and Truncated Pareto Distribution Family Functions

Yule-Simon Family Function

notdocumentedyet

Undocumented and Internally Used Functions and Classes

McCullagh (1989) Distribution Family Function

Toxoplasmosis Data

The Zeta Distribution

Class ``vglmff''

Short-tailed Symmetric Distribution Family Function

The Truncated Pareto Distribution

undocumented-methods

Undocumented Methods Functions

Zero-Inflated Negative Binomial Distribution Family Function

Hunua Ranges Data

Trajectory Plot

2008 World Fly Fishing Championships (Team results) Data

rrvglm.optim.control

Control function for rrvglm() calling optim()

Zeta Distribution Family Function

Default VGAM Plotting

The Poisson Lognormal Distribution

Probit Link Function

Ordinal Regression with Stopping Ratios

Mean Excess Plot

Fitting Unconstrained Quadratic Ordination (UQO)

Test For a Smart Object

qrrvglm.control

Control function for QRR-VGLMs (CQO)

von Mises Distribution Family Function

Control function for rrvglm

Point System for the 2008 World Fly Fishing Championships

Undergraduate Statistics Students Lifestyle Questionnaire

Slash Distribution

The Zipf Distribution

Positive-Negative Binomial Distribution

Negative Binomial Distribution Family Function

Zero-Inflated Binomial Distribution Family Function

Probability Plots for Categorical Data Analysis

The Positive-Normal Distribution

2008 World Fly Fishing Championships (Number of captures) Data

Prentice (1974) Log-gamma Distribution

Venice Maximum Sea Levels Data

Control Function for UQO models

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

Zero-Altered Negative Binomial Distribution

Constrained Quadratic Ordination

Univariate Skew-Normal Distribution Family Function

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

Low-iron Rat Teratology Data

plotvgam.control

Control Function for plotvgam()

Loglinear Model for Three Binary Responses

Zero-Altered Poisson Distribution

Defining smooths in VGAM formulae

Control function for vglm

Control function for vgam

Reciprocal Inverse Gaussian distribution

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

Prior and Working Weights of a VGLM fit

Student t Distribution

Model Diagnostic Plots for QRR-VGLMs

Smart Prediction Setup

Rhobit Link Function

Cauchit Link Function

The Dirichlet distribution

Smart Prediction

Yule-Simon Distribution

2008 World Fly Fishing Championships (Individual results) Data

Vector cubic smoothing spline

The zero Argument in VGAM Family Functions

Zero-Inflated Poisson Distribution

The Rice Distribution

Return Level Plot for GEV Fits

Zero-Altered Poisson Distribution

Waitakere Ranges Data

Cleans Up After Smart Prediction

Fitting Vector Generalized Linear Models

Bivariate Gamma: McKay's Distribution

Yeo-Johnson Transformation

Quantile Plot for Gumbel Regression

Link functions for VGLM/VGAM/etc. families

Bivariate normal distribution

Response variable extracted

Huggins (1991) Capture-recapture Model

Hyperbolic Secant Distribution Family Function

Koenker's Distribution Family Function

Complementary-log Link Function

Marginal effects for the multinomial logit and cumulative models

2008 Summer Olympic Final Medal Count Data

Perspective plot for QRR-VGLMs

Nested reduced-rank autoregressive models for multiple time series

Rutherford-Geiger Polonium Data

Wald Distribution Family Function

Zero-Inflated Geometric Distribution