Faceted figure of all three funnel plots

[elmacartney]

@itchyshin can you please provide the code on how to make a faceted plot of all three full-models funnel plots to include in the PB section? (i.e., combine base R with patchwork or cowplot)

[itchyshin]

A few things to talk to @elmacartney for a meeting

• [x] Learn some features of RMD - eval, echo etc (making HTML look nicer)
• [x] Learn to adjust figure sizes so figs look nicer
• [x] Learn to save Rdata (and also pics) so that we do not need to run some models again and again (ones that take more than 30 sec or so should be saved)

I will leave some examples for @elmacartney to work on these in the Rmd file

Some markdown tricks to do in the beginning of Chunk

include = FALSE prevents code and results from appearing in the finished file. R Markdown still runs the code in the chunk, and the results can be used by other chunks. echo = FALSE prevents code, but not the results from appearing in the finished file. This is a useful way to embed figures. message = FALSE prevents messages that are generated by code from appearing in the finished file. warning = FALSE prevents warnings that are generated by code from appearing in the finished. eval = FALSE prevents evaluation of code but the code will be included

See more here or see the cheatsheet

https://rmarkdown.rstudio.com/lesson-3.html

Actually these things are done in some chunks but not all chunks so please do it consistently

[itchyshin]

To stop getting messages and warnings you can do this in the very first chunk, that you tell R not to include

```{r setup, include = FALSE}
#kniter seetting
knitr::opts_chunk$set(
message = FALSE,
warning = FALSE, # no warnings
cache = TRUE,# Cacheing to save time when kniting
tidy = TRUE
#fig.width = 9
)

# clearning up
rm(list=ls())

[itchyshin]

Actually, you have done the first two points (so I ticked) - please make sure to do this throughout the RMD file. I have finished doing this facetting - creating the section called Panel for forest plots

We can go through these together at our meeting.