bvartools

Overview

The package bvartools implements functions for Bayesian inference of linear vector autoregressive (VAR) models. It separates a typical BVAR analysis workflow into multiple steps:

Model set-up: Produces data matrices for given lag orders and model types, which can be used for posterior simulation.
Prior specification: Generates prior matrices for a given model.
Estimation: Researchers can choose to use the posterior algorithms of the package or use their own algorithms.
Standardising model output: Combines the output of the estimation step into standardised objects for subsequent steps of the analyis.
Evaluation: Produces summary statistics, forecasts, impulse responses and forecast error variance decompositions.

In each step researchers are provided with the opportunitiy to fine-tune a model according to their specific requirements or to use the default framework for commonly used models and priors. Since version 0.1.0 the package comes with posterior simulation functions that do not require to implement any further simulation algorithms. For Bayesian inference of stationary VAR models the package covers

Standard BVAR models with independent normal-Wishart priors
BVAR models employing stochastic search variable selection à la Gerorge, Sun and Ni (2008)
BVAR models employing Bayesian variable selection à la Korobilis (2013)
Structural BVAR models, where the structural coefficients are estimated from contemporary endogenous variables (A-model)
Stochastic volatility (SV) of the errors à la Kim, Shephard and Chip (1998)
Time varying parameter models (TVP-VAR)

For Bayesian inference of cointegrated VAR models the package implements the algorithm of Koop, León-González and Strachan (2010) [KLS] – which places identification restrictions on the cointegration space – in the following variants

The BVEC model as presented in Koop, León-González and Strachan (2010)
The KLS model employing stochastic search variable selection à la Gerorge, Sun and Ni (2008)
The KLS modol employing Bayesian variable selection à la Korobilis (2013)
Structural BVEC models, where the structural coefficients are estimated from contemporaneous endogenous variables (A-model). However, no further restrictions are made regarding the cointegration term.
Stochastic volatility (SV) of the errors à la Kim, Shephard and Chip (1998)
Time varying parameter models (TVP-VEC) à la Koop, León-González and Strachan (2011)¹

For Bayesian inference of dynamic factor models the package implements the althorithm used in the textbook of Chan, Koop, Poirer and Tobias (2019).

Similar packages worth checking out are

Installation

install.packages("bvartools")

Development version

# install.packages("devtools")
devtools::install_github("franzmohr/bvartools")

Usage

This example covers the estimation of a simple Bayesian VAR (BVAR) model. For further examples on time varying parameter (TVP), stochastic volatility (SV), and vector error correction (VEC) models as well as shrinkage methods like stochastic search variable selection (SSVS) or Bayesian variable selection (BVS) see the vignettes of the package and r-econometrics.com.

Data

To illustrate the estimation process the dataset E1 from Lütkepohl (2006) is used. It contains data on West German fixed investment, disposable income and consumption expenditures in billions of DM from 1960Q1 to 1982Q4. Like in the textbook only the first 73 observations of the log-differenced series are used.

library(bvartools)

## Loading required package: coda

# Load data
data("e1")
e1 <- diff(log(e1)) * 100

# Reduce number of oberservations
e1 <- window(e1, end = c(1978, 4))

# Plot the series
plot(e1)

Setting up a model

The gen_var function produces an object, which contains information on the specification of the VAR model that should be estimated. The following code specifies a VAR(2) model with an intercept term. The number of iterations and burn-in draws is already specified at this stage.

model <- gen_var(e1, p = 2, deterministic = "const",
                 iterations = 5000, burnin = 1000)

Note that the function is also capable of generating more than one model. For example, specifying p = 0:2 would result in three models.

Adding model priors

Function add_priors produces priors for the specified model(s) in object model and augments the object accordingly.

model_with_priors <- add_priors(model,
                                coef = list(v_i = 0, v_i_det = 0),
                                sigma = list(df = 1, scale = .0001))

If researchers want to fine-tune individual prior specifications, this can be done by directly accessing the respective elements in object model_with_priors.

Estimation

The output of add_priors can be used as the input for user-written algorithms for posterior simulation. However, bvartools also comes with built-in posterior simulation functions, which can be directly applied to the output of the prior specification step by using function draw_posterior:

bvar_est <- draw_posterior(model_with_priors)

The following code sets up a simple Gibbs sampler algorithm.

# Reset random number generator for reproducibility
set.seed(1234567)

iterations <- 10000 # Number of saved iterations of the Gibbs sampler
burnin <- 5000 # Number of burn-in draws
draws <- iterations + burnin # Total number of MCMC draws

y <- t(model_with_priors$data$Y)
x <- t(model_with_priors$data$Z)

tt <- ncol(y) # Number of observations
k <- nrow(y) # Number of endogenous variables
m <- k * nrow(x) # Number of estimated coefficients

# Set (uninformative) priors
a_mu_prior <- model_with_priors$priors$coefficients$mu # Vector of prior parameter means
a_v_i_prior <- model_with_priors$priors$coefficients$v_i # Inverse of the prior covariance matrix

u_sigma_df_prior <- model_with_priors$priors$sigma$df # Prior degrees of freedom
u_sigma_scale_prior <- model_with_priors$priors$sigma$scale # Prior covariance matrix
u_sigma_df_post <- tt + u_sigma_df_prior # Posterior degrees of freedom

# Initial values
u_sigma_i <- diag(1 / .00001, k)

# Data containers for posterior draws
draws_a <- matrix(NA, m, iterations)
draws_sigma <- matrix(NA, k^2, iterations)

# Start Gibbs sampler
for (draw in 1:draws) {
  # Draw conditional mean parameters
  a <- post_normal(y, x, u_sigma_i, a_mu_prior, a_v_i_prior)
  
  # Draw variance-covariance matrix
  u <- y - matrix(a, k) %*% x # Obtain residuals
  u_sigma_scale_post <- solve(u_sigma_scale_prior + tcrossprod(u))
  u_sigma_i <- matrix(rWishart(1, u_sigma_df_post, u_sigma_scale_post)[,, 1], k)
  u_sigma <- solve(u_sigma_i) # Invert Sigma_i to obtain Sigma
  
  # Store draws
  if (draw > burnin) {
    draws_a[, draw - burnin] <- a
    draws_sigma[, draw - burnin] <- u_sigma
  }
}

`bvar` objects

Function bvar can be used to collect relevant output of the Gibbs sampler in a standardised object, which can be used by further applications such as predict to obtain forecasts or irf for impulse respons analysis.

bvar_est <- bvar(y = model_with_priors$data$Y,
                 x = model_with_priors$data$Z,
                 A = draws_a[1:18,],
                 C = draws_a[19:21, ],
                 Sigma = draws_sigma)

Summary statistics can be obained in the usual manner:

summary(bvar_est)

## 
## Bayesian VAR model with p = 2 
## 
## Model:
## 
## y ~ invest.01 + income.01 + cons.01 + invest.02 + income.02 + cons.02 + const
## 
## Variable: invest 
## 
##              Mean     SD Naive SD Time-series SD    2.5%     50%    97.5%
## invest.01 -0.3210 0.1280 0.001280       0.001286 -0.5734 -0.3216 -0.06831
## income.01  0.1472 0.5654 0.005654       0.005654 -0.9602  0.1439  1.26083
## cons.01    0.9662 0.6768 0.006768       0.006778 -0.3453  0.9560  2.32034
## invest.02 -0.1600 0.1263 0.001263       0.001305 -0.4049 -0.1612  0.08747
## income.02  0.1036 0.5519 0.005519       0.005439 -0.9653  0.1010  1.19676
## cons.02    0.9348 0.6894 0.006894       0.006894 -0.4165  0.9283  2.28239
## const     -1.6637 1.7556 0.017556       0.017556 -5.1131 -1.6428  1.81572
## 
## Variable: income 
## 
##                Mean      SD  Naive SD Time-series SD     2.5%       50%  97.5%
## invest.01  0.043539 0.03283 0.0003283      0.0003340 -0.02134  0.043640 0.1078
## income.01 -0.152587 0.14272 0.0014272      0.0014354 -0.43484 -0.152102 0.1278
## cons.01    0.287003 0.17215 0.0017215      0.0017583 -0.05264  0.284572 0.6301
## invest.02  0.049836 0.03215 0.0003215      0.0003215 -0.01315  0.049738 0.1135
## income.02  0.019209 0.13846 0.0013846      0.0013846 -0.25074  0.020273 0.2888
## cons.02   -0.008994 0.17079 0.0017079      0.0017079 -0.34237 -0.009633 0.3335
## const      1.577324 0.44978 0.0044978      0.0044978  0.69837  1.573286 2.4624
## 
## Variable: cons 
## 
##                Mean      SD  Naive SD Time-series SD      2.5%       50%
## invest.01 -0.002623 0.02648 0.0002648      0.0002648 -0.054699 -0.002433
## income.01  0.223178 0.11668 0.0011668      0.0011668 -0.003841  0.222297
## cons.01   -0.263006 0.13888 0.0013888      0.0013888 -0.539179 -0.262530
## invest.02  0.033789 0.02612 0.0002612      0.0002612 -0.017709  0.033990
## income.02  0.354398 0.11138 0.0011138      0.0011302  0.131559  0.356159
## cons.02   -0.020351 0.13878 0.0013878      0.0013661 -0.294508 -0.019763
## const      1.292296 0.35786 0.0035786      0.0035786  0.590719  1.290012
##              97.5%
## invest.01 0.049704
## income.01 0.449267
## cons.01   0.007515
## invest.02 0.085769
## income.02 0.571058
## cons.02   0.254939
## const     2.006569
## 
## Variance-covariance matrix:
## 
##                  Mean     SD Naive SD Time-series SD    2.5%     50%  97.5%
## invest_invest 22.3072 4.0178 0.040178       0.044990 15.8399 21.7999 31.327
## invest_income  0.7561 0.7313 0.007313       0.008046 -0.6330  0.7286  2.294
## invest_cons    1.2956 0.6022 0.006022       0.006781  0.2157  1.2701  2.576
## income_invest  0.7561 0.7313 0.007313       0.008046 -0.6330  0.7286  2.294
## income_income  1.4378 0.2610 0.002610       0.002854  1.0191  1.4057  2.038
## income_cons    0.6442 0.1690 0.001690       0.001873  0.3596  0.6280  1.032
## cons_invest    1.2956 0.6022 0.006022       0.006781  0.2157  1.2701  2.576
## cons_income    0.6442 0.1690 0.001690       0.001873  0.3596  0.6280  1.032
## cons_cons      0.9348 0.1681 0.001681       0.001872  0.6610  0.9141  1.312

The means of the posterior draws are very close to the results of the frequentist estimatior in Lütkepohl (2006).

Inspect posterior draws

Posterior draws can be visually inspected by using the plot function. By default, it produces a series of histograms of all estimated coefficients.

plot(bvar_est)

Alternatively, the trace plot of the post-burnin draws can be draws by adding the argument type = "trace":

plot(bvar_est, type = "trace")

Summary statistics

Summary statistics can be obtained in the usual way using the summary method.

summary(bvar_est)

## 
## Bayesian VAR model with p = 2 
## 
## Model:
## 
## y ~ invest.01 + income.01 + cons.01 + invest.02 + income.02 + cons.02 + const
## 
## Variable: invest 
## 
##              Mean     SD Naive SD Time-series SD    2.5%     50%    97.5%
## invest.01 -0.3210 0.1280 0.001280       0.001286 -0.5734 -0.3216 -0.06831
## income.01  0.1472 0.5654 0.005654       0.005654 -0.9602  0.1439  1.26083
## cons.01    0.9662 0.6768 0.006768       0.006778 -0.3453  0.9560  2.32034
## invest.02 -0.1600 0.1263 0.001263       0.001305 -0.4049 -0.1612  0.08747
## income.02  0.1036 0.5519 0.005519       0.005439 -0.9653  0.1010  1.19676
## cons.02    0.9348 0.6894 0.006894       0.006894 -0.4165  0.9283  2.28239
## const     -1.6637 1.7556 0.017556       0.017556 -5.1131 -1.6428  1.81572
## 
## Variable: income 
## 
##                Mean      SD  Naive SD Time-series SD     2.5%       50%  97.5%
## invest.01  0.043539 0.03283 0.0003283      0.0003340 -0.02134  0.043640 0.1078
## income.01 -0.152587 0.14272 0.0014272      0.0014354 -0.43484 -0.152102 0.1278
## cons.01    0.287003 0.17215 0.0017215      0.0017583 -0.05264  0.284572 0.6301
## invest.02  0.049836 0.03215 0.0003215      0.0003215 -0.01315  0.049738 0.1135
## income.02  0.019209 0.13846 0.0013846      0.0013846 -0.25074  0.020273 0.2888
## cons.02   -0.008994 0.17079 0.0017079      0.0017079 -0.34237 -0.009633 0.3335
## const      1.577324 0.44978 0.0044978      0.0044978  0.69837  1.573286 2.4624
## 
## Variable: cons 
## 
##                Mean      SD  Naive SD Time-series SD      2.5%       50%
## invest.01 -0.002623 0.02648 0.0002648      0.0002648 -0.054699 -0.002433
## income.01  0.223178 0.11668 0.0011668      0.0011668 -0.003841  0.222297
## cons.01   -0.263006 0.13888 0.0013888      0.0013888 -0.539179 -0.262530
## invest.02  0.033789 0.02612 0.0002612      0.0002612 -0.017709  0.033990
## income.02  0.354398 0.11138 0.0011138      0.0011302  0.131559  0.356159
## cons.02   -0.020351 0.13878 0.0013878      0.0013661 -0.294508 -0.019763
## const      1.292296 0.35786 0.0035786      0.0035786  0.590719  1.290012
##              97.5%
## invest.01 0.049704
## income.01 0.449267
## cons.01   0.007515
## invest.02 0.085769
## income.02 0.571058
## cons.02   0.254939
## const     2.006569
## 
## Variance-covariance matrix:
## 
##                  Mean     SD Naive SD Time-series SD    2.5%     50%  97.5%
## invest_invest 22.3072 4.0178 0.040178       0.044990 15.8399 21.7999 31.327
## invest_income  0.7561 0.7313 0.007313       0.008046 -0.6330  0.7286  2.294
## invest_cons    1.2956 0.6022 0.006022       0.006781  0.2157  1.2701  2.576
## income_invest  0.7561 0.7313 0.007313       0.008046 -0.6330  0.7286  2.294
## income_income  1.4378 0.2610 0.002610       0.002854  1.0191  1.4057  2.038
## income_cons    0.6442 0.1690 0.001690       0.001873  0.3596  0.6280  1.032
## cons_invest    1.2956 0.6022 0.006022       0.006781  0.2157  1.2701  2.576
## cons_income    0.6442 0.1690 0.001690       0.001873  0.3596  0.6280  1.032
## cons_cons      0.9348 0.1681 0.001681       0.001872  0.6610  0.9141  1.312

Thin results

The MCMC series in object est_bvar can be thinned using

bvar_est <- thin(bvar_est, thin = 10)

Forecasts

Forecasts can be obtained with the function predict. If the model contains deterministic terms, new values have to be provided in the argument new_D, which must be of the same length as the argument n.ahead.

bvar_pred <- predict(bvar_est, n.ahead = 5, new_D = rep(1, 5))

plot(bvar_pred)

Impulse response analysis

Forecast error impulse response

IR <- irf(bvar_est, impulse = "income", response = "cons", n.ahead = 8)

plot(IR, main = "Forecast Error Impulse Response", xlab = "Period", ylab = "Response")

Orthogonalised impulse response

OIR <- irf(bvar_est, impulse = "income", response = "cons", n.ahead = 8, type = "oir")

plot(OIR, main = "Orthogonalised Impulse Response", xlab = "Period", ylab = "Response")

Generalised impulse response

GIR <- irf(bvar_est, impulse = "income", response = "cons", n.ahead = 8, type = "gir")

plot(GIR, main = "Generalised Impulse Response", xlab = "Period", ylab = "Response")

Forecast error variance decomposition

bvar_fevd <- fevd(bvar_est, response = "cons")

plot(bvar_fevd, main = "FEVD of consumption")

References

Eddelbuettel, D., & Sanderson C. (2014). RcppArmadillo: Accelerating R with high-performance C++ linear algebra. Computational Statistics and Data Analysis, 71, 1054-1063. https://doi.org/10.1016/j.csda.2013.02.005

George, E. I., Sun, D., & Ni, S. (2008). Bayesian stochastic search for VAR model restrictions. Journal of Econometrics, 142(1), 553-580. https://doi.org/10.1016/j.jeconom.2007.08.017

Kim, S., Shephard, N., & Chib, S. (1998). Stochastic volatility: Likelihood inference and comparison with ARCH models. Review of Economic Studies 65(3), 361-396.

Koop, G., León-González, R., & Strachan R. W. (2010). Efficient posterior simulation for cointegrated models with priors on the cointegration space. Econometric Reviews, 29(2), 224-242. https://doi.org/10.1080/07474930903382208

Koop, G., León-González, R., & Strachan R. W. (2011). Bayesian inference in a time varying cointegration model. Journal of Econometrics, 165(2), 210-220. https://doi.org/10.1016/j.jeconom.2011.07.007

Korobilis, D. (2013). VAR forecasting using Bayesian variable selection. Journal of Applied Econometrics, 28(2), 204-230. https://doi.org/10.1002/jae.1271

Lütkepohl, H. (2006). New introduction to multiple time series analysis (2nd ed.). Berlin: Springer.

Pesaran, H. H., & Shin, Y. (1998). Generalized impulse response analysis in linear multivariate models. Economics Letters, 58, 17-29. https://doi.org/10.1016/S0165-1765(97)00214-0

Sanderson, C., & Curtin, R. (2016). Armadillo: a template-based C++ library for linear algebra. Journal of Open Source Software, 1(2), 26. https://doi.org/10.21105/joss.00026

In contrast to Koop et al. (2011) version 0.2.1 assumes a fixed value for the autocorrelation coefficient of the time varying cointegration space. A step for drawing this coefficient will be introduced in a future release. ↩

Name		Name	Last commit message	Last commit date
Latest commit History 318 Commits
.github		.github
R		R
README_files		README_files
data-raw		data-raw
data		data
inst		inst
man		man
src		src
vignettes		vignettes
.Rbuildignore		.Rbuildignore
.gitignore		.gitignore
DESCRIPTION		DESCRIPTION
NAMESPACE		NAMESPACE
NEWS.md		NEWS.md
README.Rmd		README.Rmd
README.md		README.md
bvartools.Rproj		bvartools.Rproj
cran-comments.md		cran-comments.md

Provide feedback

Saved searches

Use saved searches to filter your results more quickly

Repository files navigation

bvartools

Overview

Installation

Development version

Usage

Data

Setting up a model

Adding model priors

Estimation

`bvar` objects

Inspect posterior draws

Summary statistics

Thin results

Forecasts

Impulse response analysis

Forecast error impulse response

Orthogonalised impulse response

Generalised impulse response

Forecast error variance decomposition

References

About

Releases

Packages

Languages

franzmohr/bvartools

Folders and files

Latest commit

History

Repository files navigation

bvartools

Overview

Installation

Development version

Usage

Data

Setting up a model

Adding model priors

Estimation

bvar objects

Inspect posterior draws

Summary statistics

Thin results

Forecasts

Impulse response analysis

Forecast error impulse response

Orthogonalised impulse response

Generalised impulse response

Forecast error variance decomposition

References

Footnotes

About

Topics

Resources

Stars

Watchers

Forks

Releases

Packages 0

Languages

`bvar` objects

Packages