Package index • bayesfam

All functions

aux_family_parameters_lookup(): Lookup function for the names of the auxiliary parameters of a likelihood

aux_limits_lookup(): Lookup for limits of family auxiliary parameters.

betaprime(): Beta prime brms custom family

brms_family_lookup(): Lookup function for brms families via string identifier

cauchit(): Cauchit link function

cauchitnormal(): Custom brms family Cauchitnormal

cloglog(): Complementary-Log-Log link function

cloglognormal(): Custom brms family Cloglog-Normal in median parametrization.

construct_brms(): Construct brms family for simple linear y ~ 1 model.

dbeta_mean(): Mean parameterization the beta pdf.

dbetaprime(): Probability density function for the beta prime distribution (aka. inverse Beta)

dcauchitnormal(): Cauchitnormal Density distribution.

dcloglognormal(): Probability Density function of the Cloglognormal-Distribution

dfrechet_median(): Median parameterization of the Fréchet pdf.

dgamma_mean(): Mean parameterization of the gamma pdf.

dgeneralized_normal(): Probability density function for the generalized_normal distribution

dgompertz(): Probability density function for the Gompertz distribution, with Median parametrization.

dgumbel_mean(): Probability density function for the gumbel distribution

dkumaraswamy(): Kumaraswamy density function in median parametrisation.

dlogistic(): Probability density function for the logistic distribution

dlogitnormal(): Logitnormal density distribution in median parametrization.

dlognormal(): Lognormal density distribution in median parametrization.

dlognormal_natural(): Lognormal Natural density function with value space parameterisation (mu same as x)

dlomax(): Probability density function for the Lomax distribution, with Mean parametrization.

dshifted_inv_gaussian(): Shifted inverse Gaussian density function

dsimplex(): Simplex density function in mean parametrisation.

dsoftplusnormal(): Softplus density distribution in median parametrization.

dsymlognormal(): symlognormal density function

dunit_lindley(): Density of the Unit Lindley likelihood

dweibull_median(): Median parameterization of the Weibull pdf.

erf(): Gaussion Error function

expect_brms_family(): brms family expect recovery. Tries linear baysian model y ~ 1. Checking of the arguments done in construct_brms.

expect_eps(): Check that |a - b| < eps. Works with scalars and vectors on any input. For vector input, one may defined, how many |a - b| >= eps are acceptable with r argument. Given it is a "workhorse" used in almost all test-files, this function is also very well tested.

dgeneralized_gamma() rgeneralized_gamma() generalized_gamma(): Generalized gamma distribution

generalized_normal(): Generalized Normal BRMS family

gompertz(): Custom Gompertz brms-implementation in median parametrization.

gumbel_mean(): Gumbel brms custom family, custom implementation vs Stan

inv_cauchit(): Cauchit response function

inv_cloglog(): Complementary-Log-Log response function

inv_logit(): Logit response function

inv_softplus(): Softplus response function

inv_symlog(): Symlog response function

isInt_len(): Integer vector check

isLogic_len(): Boolean vector check

isNat_len(): Natural number vector check n >= 0.

isNum_len(): Check if a vector is numeric, has no na entries and has length len

isSingleString(): Check, if the input is a single string

kumaraswamy(): Kumaraswamy brms-implementation in median parametrization.

lenEqual(): Length and data check function

limit_data(): Data limit function

link_lookup(): Lookup function for link and repsonse functions via string identifier.

log_lik_betaprime(): Log-Likelihood of the beta prime distribution

log_lik_cauchitnormal(): Log-Likelihood vignette for the Cauchitnormal Distribution

log_lik_cloglognormal(): Log-Likelihood vignette for the Chauchitnormal distribution, with Median parametrization.

log_lik_generalized_gamma(): Log-Likelihood of the generalized gamma distribution

log_lik_generalized_normal(): Log-Likelihood of the generalized_normal distribution

log_lik_gompertz(): Log-Likelihood vignette for the Gompertz distribution, with Median parametrization.

log_lik_gumbel_mean(): Log-Likelihood of the gumbel distribution

log_lik_kumaraswamy(): Log-Likelihood vignette for the Kumaraswamy distribution, in Median parametrization.

log_lik_logistic(): Log-Likelihood of the logistic distribution

log_lik_logitnormal(): Log-Likelihood vignette for the Logitnormal distribution, in Median parametrization.

log_lik_lognormal_natural(): Log-Likelihood of the Lognormal Natural family

log_lik_lomax(): Log-Likelihood vignette for the Lomax distribution, with Mean parametrization.

log_lik_shifted_inv_gaussian(): Log-Likelihood of the shifted inverse Gaussian family

log_lik_simplex(): Log-Likelihood vignette for the Simplex distribution, in Median parametrization.

log_lik_softplusnormal(): Log-Likelihood vignette for the Softplus distribution, in Median parametrization.

log_lik_symlognormal(): Log-Likelihood for the symlognormal distribution,

log_lik_unitlindley(): Log-likelihood of the Unit Lindley family

logistic(): logistic brms custom family

logit(): Logit link function

logitnormal(): Custom brms family Logit-Normal in median parametrization.

lognormal_natural(): Lognormal Natural brms family

logsumexp(): Logarithm of the sum of exponentials.

lomax(): Lomax Stan-implementation in Mean parametrization.

normale_difference(): Uses euler metric for denominator

pkumaraswamy(): Kumaraswamy CDF in median parametrisation

posterior_epred_betaprime(): posterior_epred for the beta prime distribution

posterior_epred_cauchitnormal(): Posterior expected value prediction. Mean undefined for Cauchitnormal.

posterior_epred_cloglognormal(): Posterior expected value prediction. Mean undefined for Cloglog-Normal

posterior_epred_generalized_gamma(): posterior_epred for the generalized gamma distribution

posterior_epred_generalized_normal(): posterior_epred for the generalized_normal distribution

posterior_epred_gompertz(): Expectation-Predict vignette for the Gompertz distribution, with Median parametrization. Not defined for the Gompertz family.

posterior_epred_gumbel_mean(): posterior_epred for the gumbel distribution

posterior_epred_kumaraswamy(): Posterior expected value prediction of the Kumaraswamy implementation.

posterior_epred_logistic(): posterior_epred for the logistic distribution

posterior_epred_logitnormal(): Posterior expected value prediction vignette for Logitnormal distribution.

posterior_epred_lognormal_natural(): Expectations of posterior predictions of the Lognormal Natural family

posterior_epred_lomax(): Expectation-Predict vignette for the Lomax distribution, with Mean parametrization.

posterior_epred_shifted_inv_gaussian(): Expectations of posterior predictions of the Shifted Inverse Gaussian family

posterior_epred_simplex(): Posterior expected value prediction of the Simplex implementation.

posterior_epred_softplusnormal(): Posterior expected value prediction vignette for Softplus distribution.

posterior_epred_symlognormal(): Posterior epred for symlognormal distribution.

posterior_epred_unitlindley(): Expectations of posterior predictions of the Unit Lindley family

posterior_predict_betaprime(): posterior_predict for the beta prime distribution

posterior_predict_cauchitnormal(): Posterior-predict vignette for the Cauchitnormal Distribution

posterior_predict_cloglognormal(): Posterior-predict vignette for the Chauchitnormal distribution, with Median parametrization.

posterior_predict_generalized_gamma(): posterior_predict for the generalized gamma distribution

posterior_predict_generalized_normal(): posterior_predict for the generalized_normal distribution

posterior_predict_gompertz(): Posterior-Prediction vignette for the Gompertz distribution, with Median parametrization.

posterior_predict_gumbel_mean(): posterior_predict for the gumbel distribution

posterior_predict_kumaraswamy(): Posterior prediction vignette for the Kumaraswamy distribution, in Median parametrization.

posterior_predict_logistic(): posterior_predict for the logistic distribution

posterior_predict_logitnormal(): Posterior-predict vignette for the Logitnormal distribution, with Median parametrization.

posterior_predict_lognormal_natural(): Posterior Prediction of the Lognormal Natural family

posterior_predict_lomax(): Posterior-Prediction vignette for the Lomax distribution, with Mean parametrization.

posterior_predict_shifted_inv_gaussian(): Posterior Prediction of the Shifted Inverse Gaussian family

posterior_predict_simplex(): Posterior prediction vignette for the Simplex distribution, in Median parametrization.

posterior_predict_softplusnormal(): Posterior-predict vignette for the Softplus distribution, with Median parametrization.

posterior_predict_symlognormal(): Posterior-predict for the symlognormal distribution, with Median parametrization.

posterior_predict_unitlindley(): Posterior predictions of the Unit Lindley family

qbeta_mean(): Mean parameterization of the beta quantile function

qbetaprime(): Quantile function of the beta prime distribution

qgeneralized_normal(): Quantile function of the generalized_normal distribution

qgompertz(): Quantile function for the Gompertz distribution, with Median parametrization.

qgumbel_mean(): Quantile function of the gumbel distribution

qkumaraswamy(): Quantile function of the Kumaraswamy distribution in Median parametrisation.

qlogistic(): Quantile function of the logistic distribution

qlomax(): Quantile function for the Lomax distribution, with Mean parametrization.

qunit_lindley(): Quantile function of Unit-Lindley distribution

rIG(): RNG for the inverse gaussian distribution

rMIG(): RNG for a mixture of inverse gaussian distributions

rbeta_mean(): Beta distribution RNG for mean parameterization

rbetaprime(): RNG for the beta prime distribution

rcauchitnormal(): Cauchitnormal RNG-function

rcloglognormal(): Cloglognormal RNG-function

rexgauss_mean(): Custom rexgauss with default values

rfrechet_median(): Median parameterization of the Fréchet RNG

rgamma_mean(): Mean parameterization of the gamma RNG.

rgeneralized_normal(): RNG for the generalized_normal distribution

rgompertz(): RNG function for the Gompertz distribution, with Median parametrization.

rgumbel_mean(): RNG for the gumbel distribution

rkumaraswamy(): Kumaraswamy RNG function in Median parametrization.

rlogistic(): RNG for the logistic distribution

rlogitnormal(): Logitnormal RNG-function in median parametrization.

rlognormal(): Lognormal RNG-function in median parametrization.

rlognormal_natural(): Lognormal Natural RNG function

rlomax(): RNG function for the Lomax distribution, with Mean parametrization.

rng_lookup(): Lookup function for RNGs via string identifier

rshifted_inv_gaussian(): Shifted inverse Gaussian RNG function

rsimplex(): Simplex RNG function in Median parametrization.

rsoftplusnormal(): Softplus RNG-function in median parametrization.

rstudent_mean(): Custom rstudent with default df value mu and df arguments switched to comply to the Bayesfam allowing compatibility for Bayesim

rsymlognormal(): symlognormal RNG-function

runit_lindley(): Unit-Lindley RNG function

rweibull_median(): Median parameterization of the Weibull RNG.

shifted_inv_gaussian(): Shifted Inverse Gauss brms family

shifted_lognormal_uniform(): A mixture of shifted lognormal and uniform distribution suitable for modelling reaction times.

rshifted_lognormal_uniform() dshifted_lognormal_uniform(): Probability density and RNG function for the mixture of shifted lognormal and uniform distributions.

simplex(): Simplex brms-implementation in median parametrization.

softplus(): Softplus link function

softplusnormal(): Custom brms family Softplus in median parametrization.

symlog(): Symlog link function

symlognormal(): Custom brms family symlog-Normal

test_brms_quantile(): Check, that data of the posterior is close enough to the reference data.

test_rng(): Tests if an RNG can achieve a good enough location often enough

test_rng_asym(): Test if an RNG asymptotically approaches the true location

test_rng_quantiles(): Tests if an RNG can recover the true quantiles within a margin of error

unit_lindley(): Unit Lindley brms family