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VGAM (version 0.7-9)

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

0.7-9

License

GPL-2

Maintainer

Thomas Yee

Last Published

June 16th, 2009

Functions in VGAM (0.7-9)

The ABO Blood Group System

Invparalogistic

The Inverse Paralogistic Distribution

Inputting Data to fit a Bradley Terry Model

Beta Distribution of the Second Kind

Computes Model Coefficients and Quantities

Returns Important Matrices etc. of a QO Object

Create a Survival Object

The Rayleigh Distribution

The Lomax Distribution

CommonVGAMffArguments

Common VGAM family function Arguments

The Beta-Geometric Distribution

The AA-Aa-aa Blood Group System

The MNSs Blood Group System

Benford's Distribution

The Beta-Normal Distribution

The Two-parameter Beta Distribution Family Function

Binomial Logistic Regression by Asymmetric Maximum Likelihood Estimation

1-parameter Gamma Distribution

Bivariate Binary Regression with an Odds Ratio

Akaike's Information Criterion

The Two-parameter Beta Distribution Family Function

Extract Model Coefficients for VLM Objects

The Maxwell Distribution

Cardioid Distribution Family Function

Ali-Mikhail-Haq Distribution's Bivariate Distribution

Cauchy Distribution Family Function

The Dagum Distribution

Returns Important Matrices etc. of a RR-VGLM Object

calibrate.qrrvglm

Calibration for CQO, UQO and CAO models

Asymmetric Least Squares Quantile Regression

Chi-squared Distribution

Beta-binomial Distribution Family Function

The Pareto(IV/III/II) Distributions

Fisk Distribution family function

Poisson Regression by Asymmetric Maximum Likelihood Estimation

Beta-binomial Distribution Family Function

Folded Normal Distribution Family Function

Fitted Values of a VLM object

Exponential Regression by Asymmetric Maximum Likelihood Estimation

Vector Generalized Linear and Additive Models

Birnbaum-Saunders Distribution Family Function

Control Function for RR-VGAMs (CAO)

Erlang Distribution

calibrate-methods

Calibration for Constrained Regression Models

Cardioid Distribution

Hunting Spider Data

The Folded-Normal Distribution

The Beta-Prime Distribution

The AB-Ab-aB-ab2 Blood Group System

Extract Model Constrained/Canonical Coefficients

quasibinomialff

Quasi-Binomial Family Function

Constrained (Canonical) Coefficients

The Inverse Lomax Distribution

Logit Link Function

The Positive-Normal Distribution

Generalized Beta Distribution Family Function

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

The Laplace Distribution

The Felix Distribution

The Singh-Maddala Distribution

Bivariate Probit Model

General Electric and Westinghouse Data

Bradley Terry Model With Ties

Cauchit Link Function

Chest Pain in NZ Adults Data

Index from Array to Matrix

Constraint Matrices

The Beta-Binomial Distribution

Censored Normal Distribution

Benini Distribution Family Function

Creates a Matrix of Appropriate Dimension

The AB-Ab-aB-ab Blood Group System

Exponentiated Exponential Distribution

Ordinal Regression with Continuation Ratios

Censored Gumbel Distribution

Hyperbolic Secant Distribution Family Function

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

Lerch Phi Function

Coef.rrvglm-class

Class ``Coef.rrvglm''

2-parameter Gamma Distribution

Ordinal Regression with Adjacent Categories Probabilities

The G1G2G3 Blood Group System

The Paralogistic Distribution

Body Mass Index of New Zealand Adults Data

DeLury's Method for Population Size Estimation

Laplace Distribution

Redirects the user to rrvglm

Auckland University Undergraduate Counts Data

Link functions for VGLM/VGAM/etc. families

The Pareto Distribution

Asymmetric Laplace Distribution Family Functions

The Inverse Gaussian Distribution

Coef.qrrvglm-class

Class ``Coef.qrrvglm''

Latent Variable Plot for RR-VGLMs

Fitting a Dirichlet Distribution

Loglinear Model for Two Binary Responses

The Log-Laplace Distribution

Biplot of Constrained Regression Models

Perspective plot for QRR-VGLMs

Fitting Constrained Additive Ordination (CAO)

Frank's Bivariate Distribution Family Function

Plackett's Bivariate Distribution Family Function

Generalized Gamma distribution family function

Lognormal Distribution

Redirects the user to cqo

Gumbel Distribution Family Function

Borel-Tanner Distribution Family Function

The Generalized Extreme Value Distribution

plotvgam.control

Control Function for plotvgam()

Generalized Extreme Value Distribution Family Function

Marginal effects for the multinomial logit and cumulative models

Construct the Model Frame of a VLM Object

Loglinear Model for Three Binary Responses

Double Exponential Binomial Distribution Family Function

Pareto and Truncated Pareto Distribution Family Functions

Fitting a Dirichlet-Multinomial Distribution

Cumulative Distribution Function for LMS Quantile Regression

Generalized Beta Distribution of the Second Kind

The Poisson Lognormal Distribution

Control function for rrvglm

model.matrixvlm

Construct the Design Matrix of a VLM Object

Prentice (1974) Log-gamma Distribution

Fitting a Dirichlet-Multinomial Distribution

McKay's Bivariate Gamma Distribution

Univariate Normal Distribution with Double Censoring

Mixture of Two Univariate Normal Distributions

Log link function

Exponentiated Exponential Distribution

Fisher's Z Link Function

Exponential Distribution

Levy Distribution Family Function

Hypergeometric Family Function

Test For a Smart Object

The Dirichlet distribution

The Kumaraswamy Distribution

GARMA (Generalized Autoregressive Moving-Average) Models

The Borel-Tanner Distribution

Slash Distribution Family Function

plotdeplot.lmscreg

Density Plot for LMS Quantile Regression

Farlie-Gumbel-Morgenstern's Bivariate Distribution Family Function

Rutherford-Geiger Polonium Data

Latent Variable Plot for QO models

LMS Quantile Regression with a Yeo-Johnson Transformation to Normality

A Short-tailed Symmetric Distribution

Univariate normal distribution

Geometric Distribution

Reciprocal link function

Folded Square Root Link Function

Positive Negative Binomial Distribution Family Function

The Generalized Pareto Distribution

The Frechet Distribution

Haight's Zeta Family Function

Log-Laplace and Logit-Laplace Distribution Family Functions

Breathlessness and Wheeze Amongst Coalminers Data

Upper Record Values from a 1-parameter Exponential Distribution

Mixture of Two Poisson Distributions

Complementary Log-log Link Function

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

F Distribution Family Function

Density Plot for LMS Quantile Regression

Return Level Plot for GEV Fits

get.smart.prediction

Retrieves ``.smart.prediction''

Morgenstern's Bivariate Distribution Family Function

Inverse Gaussian Distribution Family Function

Gamma-Ordinal Link Function

Oxford Temperature Data

Rhobit Link Function

Nakagami Distribution Family Function

LMS Quantile Regression with a Box-Cox Transformation to Normality

McCullagh (1989) Distribution Family Function

Minimizing the L-q norm Family Function

2008 Summer Olympic Final Medal Count Data

Default VGAM Plotting

Negative Binomial-Ordinal Link Function

2-parameter Gamma Distribution

Zero-Inflated Poisson Distribution Family Function

Positive-Binomial Distribution

Hunua Ranges Data

USA Grain Prices Data

Control function for vgam

Toxoplasmosis Data

Prior and Working Weights of a VGLM fit

Model Diagnostic Plots for QRR-VGLMs

The Two-stage Sequential Binomial Distribution Family Function

Ordinal Regression with Cumulative Probabilities

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

notdocumentedyet

Undocumented and Internally Used Functions and Classes

Low-iron Rat Teratology Data

Logistic Distribution Family Function

Inverse Binomial Distribution Family Function

Mean Excess Plot

Quasi-Poisson Family Function

Pneumoconiosis in Coalminers Data

Positive-Poisson Distribution

The Rice Distribution

2008 World Fly Fishing Championships (Team results) Data

The Triangle Distribution

Predict Method for a VGLM fit

Mixture of Two Exponential Distributions

Positive Poisson Distribution Family Function

Multinomial Logit Model

Log-gamma Distribution Family Function

Smart Prediction

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

Student t Distribution

The Skellam Distribution

Zero-Inflated Negative Binomial Distribution Family Function

Latent Variables

Upper Record Values from a Univariate Normal Distribution

Positive-Negative Binomial Distribution

The Generalized Gamma Distribution

Constrained Quadratic Ordination

Logarithmic Distribution

Log link function with an offset

Model Calibrations

Zipf Distribution Family Function

Gamma Hyperbola Bivariate Distribution

Fitting Unconstrained Quadratic Ordination (UQO)

Poisson Family Function

Yule-Simon Distribution

Univariate Skew-Normal Distribution Family Function

Reciprocal Inverse Gaussian distribution

Generalized Pareto Distribution Family Function

Fitting Goodman's RC Association Model

Venice Maximum Sea Levels Data

Smart Prediction Setup

undocumented-methods

Undocumented Methods Functions

Class ``rrvglm''

Fitting Vector Generalized Linear Models

Zero-Altered Negative Binomial Distribution

The Laplace Distribution

Fitting Vector Generalized Additive Models

Cleans Up After Smart Prediction

Nested reduced-rank autoregressive models for multiple time series

Vector cubic smoothing spline

Quantile Plot for Gumbel Regression

Zero-Inflated Poisson Distribution

Generalized Poisson distribution

Quantile Plot for LMS Quantile Regression

The Matched Binomial Distribution Family Function

2008 World Fly Fishing Championships (Number of captures) Data

Gaussian (normal) Family Function

Simplex distribution

Zero-Inflated Binomial Distribution

Positive Binomial Distribution Family Function

2008 World Fly Fishing Championships (Individual results) Data

Complementary-log Link Function

Skew-Normal Distribution

Chinese Population in New Zealand 1867--2001 Data

Zero-Altered Negative Binomial Distribution

The zero Argument in VGAM Family Functions

Leipnik Distribution Family Function

Latent Variable Plot

Weibull Distribution Family Function

Zeta Distribution Family Function

rrvglm.optim.control

Control function for rrvglm() calling optim()

Yeo-Johnson Transformation

Point System for the 2008 World Fly Fishing Championships

Poisson-Ordinal Link Function

Zero-Altered Poisson Distribution

Bivariate Logistic Distribution Family Function

plotqtplot.lmscreg

Quantile Plot for LMS Quantile Regression

Zero-Inflated Binomial Distribution Family Function

Trajectory Plot

Control Function for UQO models

The Truncated Pareto Distribution

Gumbel's Type I Bivariate Distribution Family Function

Yule-Simon Family Function

2008 World Fly Fishing Championships Data

Waitakere Ranges Data

Censored Poisson Family Function

Ordinal Regression with Stopping Ratios

Ordinal Poisson Family Function

Control function for vglm

predict.qrrvglm

Predict Method for a CQO fit

Class ``vglmff''

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

smart.expression

S Expression for Smart Functions

Acute Myelogenous Leukemia Survival Data

Defining smooths in VGAM formulae

Zero-Inflated Negative Binomial Distribution

The Log-Gamma Distribution

Trajectory plot for QRR-VGLMs

Riemann's Zeta Function

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

von Mises Distribution Family Function

Zero-Altered Poisson Distribution

Michaelis-Menten Model

Beta-geometric Distribution Family Function

Positive Normal Distribution Family Function

Identity Link Function

Logarithmic Distribution

Log-log Link Function

Negative Binomial Distribution Family Function

Probit Link Function

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

Bivariate Logistic Distribution

calibrate.qrrvglm.control

Control function for CQO/UQO/CAO calibration

Fitting Constrained Quadratic Ordination (CQO)

The Gumbel Distribution

Power Link Function

qrrvglm.control

Control function for QRR-VGLMs (CQO)

Rice Distribution Family Function

Determine What Mode the Smart Prediction is In

Wald Distribution Family Function

Binomial Family Function