public-health-profiles.qmd

# Public Health Profiles (England and Wales)

Commonly referred to as `Fingertips`, Public Health data can be found through the [dashboard](https://fingertips.phe.org.uk/) with a comprehensive page of links
to guidance, features and methods/technical briefings: <https://fingertips.phe.org.uk/profile/guidance/supporting-information/ph-methods>.

This is also available through APIs in R (not through CRAN):

[{fingertipsR}](https://github.com/ropensci/fingertipsR) and [useful cheatsheet](https://rpubs.com/jflowers/274982)

Does not go down to LSOA level, only MSOA so cannot be used to find IMD scores.

[Static Reports](https://fingertips.phe.org.uk/static-reports/health-trends-in-england/about.html) including life expectancy, best start in life, smoking, obesity, alcohol, cardiovascular disease, respiratory disease, cancer, musculoskeletal health, mental health and wellbeing and wider determinants of health.

### R code to install

{remotes} is a package that is needed to install from GitHub so is commented out as it's installed once:

```{r}
#| eval: false
#| echo: true
# install.packages("remotes") 
remotes::install_github("rOpenSci/fingertipsR",
                        build_vignettes = TRUE,
                        dependencies = "suggests")
```

Note that the example code in the README for this package is base R so may not looks and works different to {tidyverse} coding. Base R and {tidyverse} do work together though and some code may mix the two approaches to coding.

and Python:

[fingertips_py](https://fingertips-py.readthedocs.io/en/latest/)

## Charts

### R packages

-   [{fingertipscharts}](https://github.com/ukhsa-collaboration/fingertipscharts) helps users to easily reproduce charts from Fingertips data.
-   [{PHEindicatormethods}](https://github.com/ukhsa-collaboration/PHEindicatormethods) supports execution of statistical methods approved for use in the production of PHE indicators such as those presented via Fingertips.
-   [{FunnelPlotR}](https://github.com/nhs-r-community/FunnelPlotR) - produces funnel plots with adjustments for over dispersion methods.

### Examples of visualisations

Examples of visualisations that use Public Health data can be found at [Trafford Data Lab](https://www.trafforddatalab.io/) with code open on [GitHub](https://github.com/traffordDataLab).

### Webinars/Workshops

[An introduction to Public Health England's packages, fingertipsR and fingertipscharts](https://www.youtube.com/watch?v=veJlBNoK1zA)

[Building R packages for your analytical pipeline](https://www.youtube.com/watch?v=YjUPgHuw53E) - using {fingertipsR}, {PHEindicatormethods}, {fingertipscharts} and {phecharts}.

[Using R to automate the generation of performance matrixes from Fingertips](https://www.youtube.com/watch?v=8jcPwD8x8WE&t=14727s)

[PHINE Network meeting](https://www.youtube.com/watch?v=EQGBVbUL9zM) A worked example of how to use the `phe_dsr()` function from the {PHEindicatormethods} R package - A run through some of methods you can use to load data into Power BI - Loading using an API connection - NOMIS

## Technical Briefings

Technical briefings from Apho (Association of Public Health Observatories) are available as downloadable pdfs which [Scotland Public Health Observatory](https://www.scotpho.org.uk/methods-and-data/methodology/) have compiled in one page along with their published guidance.

Methodology covered includes:

- Standardisation
- Confidence Intervals
- Process Control charts
- Health Inequalities
- Life expectancy and healthy life expectancy
- Developing indicators
- Target setting
- Health Inequalities Impact Assessment
- Small area modelled (or synthetic) estimates