From c53a162f96bf88eef816b7930e08b355da49abab Mon Sep 17 00:00:00 2001 From: michellepistner Date: Fri, 17 May 2024 21:15:55 -0400 Subject: [PATCH] final vignette update --- vignettes/introduction-to-fido.Rmd | 10 +++++----- .../unnamed-chunk-13-1.png => pibble-CD-clr.png} | Bin ...-chunk-14-1.png => pibble-posterior-summary.png} | Bin .../unnamed-chunk-12-1.png => pibble-ppc-sum.png} | Bin .../unnamed-chunk-10-1.png => pibble-ppc.png} | Bin .../unnamed-chunk-7-1.png => pibble-priors.png} | Bin 6 files changed, 5 insertions(+), 5 deletions(-) rename vignettes/{figure/unnamed-chunk-13-1.png => pibble-CD-clr.png} (100%) rename vignettes/{figure/unnamed-chunk-14-1.png => pibble-posterior-summary.png} (100%) rename vignettes/{figure/unnamed-chunk-12-1.png => pibble-ppc-sum.png} (100%) rename vignettes/{figure/unnamed-chunk-10-1.png => pibble-ppc.png} (100%) rename vignettes/{figure/unnamed-chunk-7-1.png => pibble-priors.png} (100%) diff --git a/vignettes/introduction-to-fido.Rmd b/vignettes/introduction-to-fido.Rmd index 2633f6c..2da4f8c 100644 --- a/vignettes/introduction-to-fido.Rmd +++ b/vignettes/introduction-to-fido.Rmd @@ -280,7 +280,7 @@ p <- plot(priors, par="Lambda") p + ggplot2::xlim(c(-10, 10)) ``` -![](figure/unnamed-chunk-7-1.png) +![](pibble-priors.png) This looks fairly reasonable to me. So I am going to go ahead and fit the model with data. `fido` provides a helper method called `refit` @@ -322,7 +322,7 @@ object as in our `priors` object]. ppc(posterior) + ggplot2::coord_cartesian(ylim=c(0, 30000)) ``` -![](figure/unnamed-chunk-10-1.png) +![](pibble-ppc.png) There are a few things to note about this plot. First, when zoomed out like this it looks it is hard to make much of it. This is a fairly large dataset we are @@ -353,7 +353,7 @@ than the other. ppc(posterior, from_scratch=TRUE) +ggplot2::coord_cartesian(ylim=c(0, 30000)) ``` -![](figure/unnamed-chunk-12-1.png) +![](pibble-ppc-sum.png) ```r ppc_summary(posterior, from_scratch=TRUE) @@ -376,7 +376,7 @@ plot(posterior, par="Lambda", focus.coord = focus, focus.cov = rownames(X)[2:4]) #> Adding another scale for colour, which will replace the existing scale. ``` -![](figure/unnamed-chunk-13-1.png) +![](pibble-CD-clr.png) The first, and most obvious ting to notice is that the covariate `age` has pretty much no effect at all, whatever effect it may have is incredibly weak. So @@ -424,7 +424,7 @@ plot(posterior, par="Lambda", focus.coord = focus, focus.cov = rownames(X)[2]) #> Adding another scale for colour, which will replace the existing scale. ``` -![](figure/unnamed-chunk-14-1.png) +![](pibble-posterior-summary.png) # More Technical Details diff --git a/vignettes/figure/unnamed-chunk-13-1.png b/vignettes/pibble-CD-clr.png similarity index 100% rename from vignettes/figure/unnamed-chunk-13-1.png rename to vignettes/pibble-CD-clr.png diff --git a/vignettes/figure/unnamed-chunk-14-1.png b/vignettes/pibble-posterior-summary.png similarity index 100% rename from vignettes/figure/unnamed-chunk-14-1.png rename to vignettes/pibble-posterior-summary.png diff --git a/vignettes/figure/unnamed-chunk-12-1.png b/vignettes/pibble-ppc-sum.png similarity index 100% rename from vignettes/figure/unnamed-chunk-12-1.png rename to vignettes/pibble-ppc-sum.png diff --git a/vignettes/figure/unnamed-chunk-10-1.png b/vignettes/pibble-ppc.png similarity index 100% rename from vignettes/figure/unnamed-chunk-10-1.png rename to vignettes/pibble-ppc.png diff --git a/vignettes/figure/unnamed-chunk-7-1.png b/vignettes/pibble-priors.png similarity index 100% rename from vignettes/figure/unnamed-chunk-7-1.png rename to vignettes/pibble-priors.png