From 38f158bd769ee3fe3dcf0dc08ce2213fd2853ad9 Mon Sep 17 00:00:00 2001
From: Olivia <47031870+oliviabboyd@users.noreply.github.com>
Date: Wed, 25 Oct 2023 04:31:37 +0100
Subject: [PATCH] minor_updates_slides
---
gis/gis1/slides_gis1.Rmd | 108 ++-------------------------------------
gis/gis2/slides_gis2.Rmd | 10 ++--
gis/gis3/slides_gis3.Rmd | 12 ++---
3 files changed, 15 insertions(+), 115 deletions(-)
diff --git a/gis/gis1/slides_gis1.Rmd b/gis/gis1/slides_gis1.Rmd
index 1f31e91..7a0706e 100644
--- a/gis/gis1/slides_gis1.Rmd
+++ b/gis/gis1/slides_gis1.Rmd
@@ -290,44 +290,7 @@ knitr::include_graphics(xfun::relative_path(here::here("images", "welcome", "tea
]
-We too have been working overtime on COVID response...
*and we believe that accelerating public health's transition to R is really important.*
-
----
-# A global grassroots movement
-
-Some faces from our broader team
-
-```{r, eval = TRUE, echo = FALSE, out.width = "120%"}
-# Using here() alone won't work because Rmd folder becomes the rendering root.
-# adding xfun::relative_path() creates a dynamic file path between the Rmd location and the here() path.
-# It dynamically creates the ../../etc filepath.
-
-knitr::include_graphics(xfun::relative_path(here::here("images", "welcome", "team_faces.png")))
-```
-
-
----
-# Partnerships
-
-We work closely with local and global entities to support people doing the hard work of public health practice
-
-
-```{r, eval = TRUE, echo = FALSE, out.width = "80%"}
-# Using here() alone won't work because Rmd folder becomes the rendering root.
-# adding xfun::relative_path() creates a dynamic file path between the Rmd location and the here() path.
-# It dynamically creates the ../../etc filepath.
-
-knitr::include_graphics(xfun::relative_path(here::here("images", "welcome", "partners-blur.jpg")))
-```
-
-
-
-???
-- What makes us different is that we focus on the challenges of applied epi, not academic epi. We emphasize the skills used every day by ground-level epidemiologists.
-
-
-
-
+We too worked overtime on COVID response...
*and we believe that accelerating public health's transition to R is really important.*
---
@@ -358,12 +321,6 @@ class: inverse, center, middle
----
-# Your perceptions, hopes, and fears
-
-
-
-
---
# Course objectives
@@ -446,7 +403,7 @@ Most learning happens when you are coding, and have rapid on-hand assistance
--
-- **Coding assistance** raise your hand during the exercise for 1-on-1 support
+- **Coding assistance**: raise your hand during the exercise for 1-on-1 support
--
@@ -454,70 +411,13 @@ Most learning happens when you are coding, and have rapid on-hand assistance
--
-- **Screen fatigue is real**
-
---
-
-- **The exercises are long** - it is OK if you do not finish. The complete code is available to you in the "scripts/backup" folder
+- **The exercises are long** - it is OK if you do not finish. The complete code is available to you in the **"scripts/backup"** folder
--
- **Extra support** is available if you are confused
-
-
-
----
-# Agreement with each other
-
-**Our team will:**
-
---
-
-- Create an affirming, supportive learning space
-
---
-
-- Provide personalized attention, as much as possible
-
---
-
-- Allow you space to explore and "tinker" as you learn
-
---
-
-- Appreciate your expertise
-
---
-
-**We hope that you will:**
-
---
-
-- Reach outside of your comfort zone *(you might discover a new passion!)*
-
---
-
-- Try to attend all the sessions, and catch-up if you miss
-
---
-
-- Keep trying
-
---
-
-- Tell us if you do not understand
-
---
-
-- Be supportive of fellow participants
-
-???
-We are in this course to succeed, together
-
-
-
---
# This session: objectives & schedule
@@ -914,7 +814,7 @@ knitr::include_graphics(xfun::relative_path(here::here("images", "gis", "standar
.footnote[Image source: https://www.mdpi.com/ijgi/ijgi-09-00196/article_deploy/html/images/ijgi-09-00196-g005.png
]
---
-# Other key parts of maps to consider
+# Other key parts of map
.pull-left[
- Compass or North arrows
diff --git a/gis/gis2/slides_gis2.Rmd b/gis/gis2/slides_gis2.Rmd
index 1174968..2bdfec3 100644
--- a/gis/gis2/slides_gis2.Rmd
+++ b/gis/gis2/slides_gis2.Rmd
@@ -194,7 +194,7 @@ knitr::include_graphics(xfun::relative_path(here::here("images", "gis", "dh_nn.p
## In practice:
- Create a **new object** to join layers (cases + health facilities) for NN analysis
-- Use `join = st_nearest_feature`argument for `st_join()`#
+- Use `join = st_nearest_feature` argument for `st_join()`
- Calculates and appends nearest health facility to case
--
@@ -429,7 +429,7 @@ We can combine buffers via a **union**
```{r eval = F, echo=T}
sle_hf_outbreak_1k <- sle_hf_outbreak %>%
- st_buffer(dist = 1000) %>% # lengths in meters
+ st_buffer(dist = 1000) %>% # length in meters
st_union() %>% # combine overlaps into a single shape
st_as_sf() # convert to sf class
```
@@ -453,11 +453,11 @@ class: inverse, center, middle
---
# Interactive maps
-R has excellent **interactive* GIS capabilities
+R has excellent **interactive** GIS capabilities
- {leaflet}, {tmap}, {mapview} can all be used to produce interactive maps
-- these maps allow users to pan, scroll, zoom, select, etc.
-- interactive maps can be shared in HTML outbreak situation reports, dashboards, shiny apps, etc.
+- These maps allow users to pan, scroll, zoom, select, etc.
+- Interactive maps can be shared in HTML outbreak situation reports, dashboards, shiny apps, etc.
The exercises today will provide an opportunity to work through an example using {lealet}.
diff --git a/gis/gis3/slides_gis3.Rmd b/gis/gis3/slides_gis3.Rmd
index f079e48..754471a 100644
--- a/gis/gis3/slides_gis3.Rmd
+++ b/gis/gis3/slides_gis3.Rmd
@@ -172,14 +172,14 @@ There are over 500 cities within the state of Georgia
In the USA, census data often include data on *Race* and *Ethnicity* as two separate columns.
-Ethnicity options are typically:
+Ethnicity options can include:
-* "Hispanic or Latino" or,
+* "Hispanic or Latino"
* "Not Hispanic or Latino"
--
-Race options often include:
+Race options can include:
* "American Indian or Alaska Native" (sometimes abbreviated as AI/AN)
* "Asian"
@@ -192,13 +192,13 @@ Race options often include:
# Surveillance periods
-We also might want to think about viewing *case counts over time* using **surveillance periods**
+We also might want to think about viewing **case counts over time** using **surveillance periods**.
Why might this be useful?
-- Compare *incidence* across **time periods** (e.g. week to week)
+- Compare **incidence** across **time periods** (e.g. week to week)
- Observe how and where the outbreak is growing fastest
-- How might we *create surveillance periods* in R for our analysis?
+- How might we **create surveillance periods** in R for our analysis?
- `floor_date()` from {lubridate}