Learn R Programming

⚠️There's a newer version (1.1-13) of this package.Take me there.

VGAM (version 0.7-1)

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.

Copy Link

Version

Install

install.packages('VGAM')

Monthly Downloads

43,625

Version

0.7-1

License

GPL version 2

Maintainer

Thomas Yee

Last Published

February 12th, 2025

Functions in VGAM (0.7-1)

Constrained (Canonical) Coefficients

The AA-Aa-aa Blood Group System

Frechet Distribution Family Function

The Fisk Distribution

Inputting Data to fit a Bradley Terry Model

Fitted Values of a VLM object

The Inverse Lomax Distribution

The Rayleigh Distribution

calibrate.qrrvglm

Calibration for CQO, UQO and CAO models

The Paralogistic Distribution

The Singh-Maddala Distribution

Bradley Terry Model With Ties

Zipf Distribution Family Function

Bivariate Probit Model

Redirects the user to rrvglm

The Benini Distribution

The Pareto(IV/III/II) Distributions

Dagum Distribution Family Function

Logarithmic Distribution

Auckland University Undergraduate Counts

Univariate normal distribution

The Generalized Gamma Distribution

Nested reduced-rank autoregressive models for multiple time series

Quantile Plot for Gumbel Regression

Log link function with an offset

Fitting Vector Generalized Additive Models

Upper Record Values from a 1-parameter Exponential Distribution

Return Level Plot for GEV Fits

Exponential Regression by Asymmetric Maximum Likelihood Estimation

Simplex distribution

The Log-Gamma Distribution

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

Zero-Altered Negative Binomial Distribution

Mean Excess Plot

The Two-parameter Beta Distribution Family Function

Cardioid Distribution

Quantile Plot for LMS Quantile Regression

Zero-Altered Negative Binomial Distribution

Log-gamma Distribution Family Function

The Zeta Distribution

Nakagami Distribution

plotdeplot.lmscreg

Density Plot for LMS Quantile Regression

Plackett's Bivariate Distribution

Positive-Binomial Distribution

Returns Important Matrices etc. of a QO Object

The G1G2G3 Blood Group System

Computes Model Coefficients and Quantities

The Lomax Distribution

Coef.rrvglm-class

Class ``Coef.rrvglm''

Control Function for RR-VGAMs (CAO)

Invparalogistic

The Inverse Paralogistic Distribution

Bivariate Logistic Distribution Family Function

The Two-parameter Beta Distribution Family Function

Ordinal Regression with Adjacent Categories Probabilities

Erlang Distribution

The Beta-Normal Distribution

The Beta-Prime Distribution

Generalized Pareto Distribution Family Function

Beta-geometric Distribution Family Function

Bivariate Logistic Regression

Birnbaum-Saunders Distribution Family Function

calibrate.qrrvglm.control

Control function for CQO/UQO/CAO calibration

Beta Distribution of the Second Kind

Fitting Constrained Quadratic Ordination (CQO)

calibrate-methods

Calibration for Constrained Regression Models

Biplot of Constrained Regression Models

Univariate Normal Distribution with Double Censoring

The Gumbel Distribution

Hunting Spider Data

Log-log Link Function

Extract Model Coefficients for VLM Objects

The Inverse Gaussian Distribution

The MNSs Blood Group System

Haight's Zeta Function

The AB-Ab-aB-ab Blood Group System

Bivariate Logistic Distribution

Link functions for VGLM/VGAM/etc. families

Ordinal Regression with Continuation Ratios

Constraint Matrices

Cumulative Distribution Function for LMS Quantile Regression

Returns Important Matrices etc. of a RR-VGLM Object

Coef.qrrvglm-class

Class ``Coef.qrrvglm''

The Maxwell Distribution

The Pareto Distribution

Beta-binomial Distribution Family Function

The ABO Blood Group System

Fitting a Dirichlet Distribution

Beta-binomial Distribution Family Function

1-parameter Gamma Distribution

Density Plot for LMS Quantile Regression

F Distribution Family Function

Chi-squared Distribution

2-parameter Gamma Distribution

Model Calibrations

The Beta-Binomial Distribution

The Beta-Geometric Distribution

Vector Generalized Linear and Additive Models

Censored Normal Distribution

Fitting Constrained Additive Ordination (CAO)

Censored Gumbel Distribution

Creates a Matrix of Appropriate Dimension

Binomial Family Function

Fitting a Dirichlet-Multinomial Distribution

GARMA (Generalized Autoregressive Moving-Average) Models

Exponentiated Exponential Distribution

Lerch Phi Function

Logit Link Function

Censored Exponential Distribution

The Generalized Pareto Distribution

Chest Pain in NZ Adults

Body Mass Index of New Zealand Adults

Complementary Log-log Link Function

Low-iron Rat Teratology Data

Extract Model Constrained/Canonical Coefficients

Cauchy Distribution Family Function

Breathlessness and Wheeze Amongst Coalminers

Exponentiated Exponential Distribution

Lognormal Distribution

Generalized Poisson distribution

Complementary-log Link Function

Gaussian (normal) Family Function

Frank's Bivariate Distribution

Ordinal Regression with Cumulative Probabilities

Generalized Extreme Value Distribution Family Function

Gumbel Distribution Family Function

LMS Quantile Regression with a Box-Cox Transformation to Normality

The Generalized Beta Distribution (Libby and Novick, 1982)

The Laplace Distribution

Gamma Hyperbola Bivariate Distribution

Oxford Temperature Data

Fisher's Z Link Function

model.matrixvlm

Construct the Design Matrix of a VLM Object

Latent Variables

Latent Variable Plot for RR-VGLMs

Geometric Distribution

Fitting a Dirichlet-Multinomial Distribution

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

Logistic Distribution Family Function

Student t Distribution

Determine What Mode the Smart Prediction is In

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

plotvgam.control

Control Function for plotvgam()

General Electric and Westinghouse Data

Positive Normal Distribution Family Function

Latent Variable Plot for QO models

Latent Variable Plot

Levy Distribution Family Function

Hypergeometric Family Function

Identity Link Function

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

Poisson Family Function

Model Diagnostic Plots for QRR-VGLMs

Venice Maximum Sea Levels

Mixture of Two Poisson Distributions

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

Leipnik Distribution Family Function

Log link function

qrrvglm.control

Control function for QRR-VGLMs (CQO)

Negative Binomial Distribution Family Function

Test For a Smart Object

Negative Binomial-Ordinal Link Function

Yeo-Johnson Transformation

Logarithmic Distribution

Default VGAM Plotting

get.smart.prediction

Retrieves ``.smart.prediction''

Perspective plot for QRR-VGLMs

Gamma-Ordinal Link Function

Reciprocal Inverse Gaussian distribution

Upper Record Values from a Univariate Normal Distribution

Rhobit Link Function

Inverse Gaussian Distribution Family Function

Data on Back Pain Prognosis, from Anderson (1984)

The Laplace Distribution

The Positive-Normal Distribution

Loglinear Model for Two Binary Responses

Control function for rrvglm

von Mises Distribution Family Function

Wald Distribution Family Function

Class ``rrvglm''

Pareto and Truncated Pareto Distribution Family Functions

Smart Prediction Setup

LMS Quantile Regression with a Yeo-Johnson Transformation to Normality

Loglinear Model for Three Binary Responses

Mixture of Two Univariate Normal Distributions

Michaelis-Menten Model

Prentice (1974) Log-gamma Distribution

Construct the Model Frame of a VLM Object

Multinomial Logit Model

Skew-Normal Distribution

Smart Prediction

rrvglm.optim.control

Control function for rrvglm() calling optim()

Probit Link Function

The AB-Ab-aB-ab2 Blood Group System

plotqtplot.lmscreg

Quantile Plot for LMS Quantile Regression

Positive-Poisson Distribution

Short-tailed Symmetric Distribution Family Function

The Truncated Pareto Distribution

Ordinal Regression with Stopping Ratios

Chest Pain in NZ Adults Data

Zero-Inflated Poisson Distribution Family Function

Zero-Altered Poisson Distribution

The Felix Distribution

McCullagh (1989) Distribution Family Function

Asymmetric Least Squares Quantile Regression

Trajectory Plot

smart.expression

S Expression for Smart Functions

Constrained Quadratic Ordination

Defining smooths in VGAM formulae

Control Function for UQO models

Positive-negative binomial distribution random variates

Fitting Vector Generalized Linear Models

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

Cleans Up After Smart Prediction

Chinese Population in New Zealand 1867--2001

Vector cubic smoothing spline

notdocumentedyet

Undocumented and Internally Used Functions and Classes

Positive Binomial Distribution Family Function

Control function for vglm

Zero-Inflated Binomial Distribution

Zero-Inflated Binomial Distribution Family Function

Quasi-Poisson Family Function

Class ``vglmff''

Control function for vgam

Cauchit Link Function

The Dirichlet distribution

Redirects the user to cqo

Ordinal Poisson Family Function

Asymmetric Laplace Distribution Family Functions

Exponential Distribution

2-parameter Gamma Distribution

The Triangle Distribution

Generalized Gamma distribution family function

Zeta Distribution Family Function

Reciprocal link function

Univariate Skew-Normal Distribution Family Function

Borel-Tanner Distribution Family Function

Ali-Mikhail-Haq Distribution's Bivariate Distribution

Generalized Beta Distribution of the Second Kind

Poisson Regression by Asymmetric Maximum Likelihood Estimation

Akaike's Information Criterion

DeLury's Method for Population Size Estimation

undocumented-methods

Undocumented Methods Functions

Farlie-Gumbel-Morgenstern's Bivariate Distribution

Binomial Logistic Regression by Asymmetric Maximum Likelihood Estimation

The Generalized Extreme Value Distribution

Minimizing the L-q norm Family Function

Fitting Goodman's RC Association Model

CommonVGAMffArguments

Common VGAM family function Arguments

Index from Array to Matrix

Cardioid Distribution Family Function

Benford's Distribution

Mixture of Two Exponential Distributions

The Folded-Normal Distribution

Zero-Inflated Poisson Distribution

Weibull Distribution Family Function

Positive Negative Binomial Distribution Family Function

Folded Square Root Link Function

Log-Laplace and Logit-Laplace Distribution Family Functions

Positive Poisson Distribution Family Function

Trajectory plot for QRR-VGLMs

Predict Method for a VGLM fit

Create a Survival Object

McKay's Bivariate Gamma Distribution

Double Exponential Binomial Distribution Family Function

The Poisson Lognormal Distribution

The Borel-Tanner Distribution

Rutherford-Geiger Polonium Data

2008 World Fly Fishing Championships (Number of captures) Data

The Skellam Distribution

The Log-Laplace Distribution

Hypergeometric Family Function

Acute Myelogenous Leukemia Survival Data

Laplace Distribution

Toxoplasmosis Data

The Kumaraswamy Distribution

Inverse Binomial Distribution Family Function

Yule-Simon Family Function

Positive-Negative Binomial Distribution

The Matched Binomial Distribution Family Function

Pneumoconiosis in Coalminers Data

Proportional Odds Model for Ordinal Regression

Morgenstern's Bivariate Distribution Family Function

Marginal effects for the multinomial logit and cumulative models

quasibinomialff

Quasi-Binomial Family Function

predict.qrrvglm

Predict Method for a CQO fit

The Rice Distribution

Hunua Ranges Data

USA Grain Prices Data

The Two-stage Sequential Binomial Distribution Family Function

Fitting Unconstrained Quadratic Ordination (UQO)

New Zealand Marital Data.

Prior and Working Weights of a VGLM fit

2008 World Fly Fishing Championships Data

Slash Distribution

Rice Distribution Family Function

2008 World Fly Fishing Championships (Individual results) Data

2008 Summer Olympic Final Medal Count Data

Zero-Inflated Negative Binomial Distribution Family Function

Zero-Altered Poisson Distribution

Folded Normal Distribution Family Function

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

Cauchy Distribution Family Function

Probability Plots for Categorical Data Analysis

Point System for the 2008 World Fly Fishing Championships

Censored Poisson Family Function

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

Zero-Inflated Negative Binomial Distribution

Hyperbolic Secant Distribution Family Function

The zero Argument in VGAM Family Functions

Gumbel's Type I Bivariate Distribution Family Function

Power Link Function

Poisson-Ordinal Link Function

Waitakere Ranges Data

2008 World Fly Fishing Championships (Team results) Data

Yule-Simon Distribution