From 057d6e22c945c154167be1bf532f64e5fe420328 Mon Sep 17 00:00:00 2001
From: helske <jouni.helske@iki.fi>
Date: Sat, 10 Jul 2021 00:08:40 +0300
Subject: [PATCH] update docs

---
 .Rbuildignore                              |  1 +
 DESCRIPTION                                |  2 +-
 NAMESPACE                                  |  1 +
 man/drownings.Rd                           | 12 +++++++-----
 man/{predict.Rd => predict.mcmc_output.Rd} |  5 ++++-
 5 files changed, 14 insertions(+), 7 deletions(-)
 rename man/{predict.Rd => predict.mcmc_output.Rd} (96%)

diff --git a/.Rbuildignore b/.Rbuildignore
index 20d1730c..fb6972db 100644
--- a/.Rbuildignore
+++ b/.Rbuildignore
@@ -13,3 +13,4 @@
 ^vignettes/psi_pf_experiments/.*\.sh$
 ^vignettes/psi_pf_experiments/.*\.R$
 ^\.github$
+slides_UseR2021
diff --git a/DESCRIPTION b/DESCRIPTION
index b065737e..2b7317ef 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -3,7 +3,7 @@ Type: Package
 Title: Bayesian Inference of Non-Linear and Non-Gaussian State Space
         Models
 Version: 1.1.5
-Date: 2021-06-14
+Date: 2021-07-09
 Authors@R: 
     c(person(given = "Jouni",
            family = "Helske",
diff --git a/NAMESPACE b/NAMESPACE
index b516bf6d..c710e852 100644
--- a/NAMESPACE
+++ b/NAMESPACE
@@ -81,6 +81,7 @@ importFrom(stats,end)
 importFrom(stats,frequency)
 importFrom(stats,is.ts)
 importFrom(stats,logLik)
+importFrom(stats,na.omit)
 importFrom(stats,qlogis)
 importFrom(stats,quantile)
 importFrom(stats,sd)
diff --git a/man/drownings.Rd b/man/drownings.Rd
index 89fd2650..9618e1d6 100644
--- a/man/drownings.Rd
+++ b/man/drownings.Rd
@@ -3,17 +3,19 @@
 \docType{data}
 \name{drownings}
 \alias{drownings}
-\title{Deaths by drowning in Finland in 1969-2014}
+\title{Deaths by drowning in Finland in 1969-2019}
 \format{
-A time series object containing 46 observations.
+A time series object containing 51 observations.
 }
 \source{
 Statistics Finland \url{https://pxnet2.stat.fi/PXWeb/pxweb/en/StatFin/}.
 }
 \description{
-Dataset containing number of deaths by drowning in Finland in 1969-2014,
-yearly average summer temperatures (June to August) and
-corresponding population sizes (in hundreds of thousands).
+Dataset containing number of deaths by drowning in Finland in 1969-2019,
+corresponding population sizes (in hundreds of thousands), and
+yearly average summer temperatures (June to August), based on simple 
+unweighted average of three weather stations: Helsinki (Southern Finland), 
+Jyväskylä (Central Finland), and Sodankylä (Northern Finland).
 }
 \examples{
 data("drownings")
diff --git a/man/predict.Rd b/man/predict.mcmc_output.Rd
similarity index 96%
rename from man/predict.Rd
rename to man/predict.mcmc_output.Rd
index 53ea1a85..7aeb9fa7 100644
--- a/man/predict.Rd
+++ b/man/predict.mcmc_output.Rd
@@ -2,6 +2,7 @@
 % Please edit documentation in R/predict.R
 \name{predict.mcmc_output}
 \alias{predict.mcmc_output}
+\alias{predict}
 \title{Predictions for State Space Models}
 \usage{
 \method{predict}{mcmc_output}(
@@ -29,7 +30,9 @@ posterior predictive checks. In this case, set argument \code{future} to \code{F
 
 \item{nsim}{Number of samples to draw.}
 
-\item{future}{Default is \code{TRUE}, in which case predictions are future. 
+\item{future}{Default is \code{TRUE}, in which case predictions are for the future, 
+using posterior samples of (theta, alpha_T+1) i.e. the 
+posterior samples of hyperparameters and latest states. 
 Otherwise it is assumed that \code{model} corresponds to the original model.}
 
 \item{seed}{Seed for RNG.}