nhs-r-community/health-inequalities-notebook

Health Inequalities book

health-inequalities-notebook's Issues

Public Health resources

https://rdrr.io/github/PublicHealthEngland/fingertipsR/man/nearest_neighbours.html - nearest neighbour information is more useful for comparisons to areas that are more alike rather than geographically neighbouring.

Add the "shape" mapping project to the data source page

Add this link under section 3 of the Data Source page (authenticated dashboards).
Access is free for NHS users
https://app.shapeatlas.net/place

Add some initial content to the book

A welcome page, include the README, etc

Add in section about IMD - centroids

Restrict the region output as it prints 1000

https://health-inequalities.nhsrcommunity.com/imd.html#quintiles-in-r

LSOA information

• https://github.com/stupidpupil/wales_lsoa_trip_points
• https://www.datadictionary.nhs.uk/nhs_business_definitions/lower_layer_super_output_area.html
• gridall postcodes https://digital.nhs.uk/services/organisation-data-service/export-data-files/csv-downloads/office-for-national-statistics-data

Core 20 plus chapter

Explain and link to resources

Remove renv files

Publish to github pages

This book should be published to github pages. I'm happy to arrange that but don't currently have permissions. Might be worth dealing with issue #1 first.

List out health inequality expected analyses

Assign to @Trendy once accepted

• Ethnicity - grouped for power (explain requirements for power)
• Gender
• Co-morbidities (by number or specific like Asthma, heart disease?)
• Long term conditions
• Deprivation - when quintiles are used instead of deciles
• Places like PCN/PBB
• Age profile - using population pyramid
• Other?

Some things are flagged in the local system GPRCC/Ehealthscope (a Nottingham based system like a TRE which is available for GPs to access for patient level care and now hosts public health data like cause of death for public health analysis only).

Understanding and generating Directly Standardised Rates

Consider the importance of standardised rates in reporting and assessing health inequalities, differences between crude rates, direct and indirect standardisation. Technical approach to generating standardised rates.

Issue with CNAME being wiped by gh-action

Manually added CNAME as this gets wiped out with the use of gh pages (original) but is retained when using GitHub Actions (beta). However, quarto doesn't publish to gh-pages with GitHub Actions (beta).

Related to similar issues in other NHS-R Community books nhs-r-community/NHSR-way#48

JamesIves/github-pages-deploy-action#354

Clean repository

Delete folder like _book as recommended by https://quarto.org/docs/publishing/github-pages.html#ignoring-output.

As this is now published through the docker container in GitHub there is no longer any need for the gh-pages or the _book folder as anything merged will be automatically run through the gh-actions.

Source of Trust codes to names

Readme link typo remains

Add comments/notations

https://quarto.org/docs/output-formats/html-basics.html#commenting uses https://web.hypothes.is/

Write a page giving an overview of Indices of Multiple Deprivation (IMD)

Possible sources:
https://en.wikipedia.org/wiki/Multiple_deprivation_index
https://www.gov.uk/government/statistics/english-indices-of-deprivation-2019

Mapping:
https://www.gov.uk/guidance/english-indices-of-deprivation-2019-mapping-resources

Live map:
http://dclgapps.communities.gov.uk/imd/iod_index.html

A page outlining main Population characteristics used in Health Inequalities

#15 This broadens scope to Age, Gender and Ethnicity to start. Can further broaden to include characteristics such as first language, homeless and migrant statuses of populations. An issue #13 has been raised for a Page on IMD.

CORE20PLUS5 page

Add a page explaining NHSE's CORE20PLUS5 for adults and for children (https://www.england.nhs.uk/about/equality/equality-hub/national-healthcare-inequalities-improvement-programme/core20plus5/)

DSR (directly standardised rates) code and when to use it

Sample code required as well as when to use it. Assign to @Trendy once accepted invitation.

Coding of learning disabilities/IDD

Using the GP register (numbers relative to published national data for things like Autism).
In some service may consider they have under recording issues.

Add link to NHSE's statement on information on health inequalities

https://www.england.nhs.uk/long-read/nhs-englands-statement-on-information-on-health-inequalities-duty/

Add a page covering organisations focussed on inequalities & data

eg.
Organisation websites
Useful social media accounts

Write a page covering ethnicity categorisations and best-practice

Cover high-level categories, and detail.
Cover differences between NHS and ONS categorisations (if they exist) - keeping to primary sources eg. NHS data dictionary.

Start a page linking out to important reference material and background reading

For example:

• The Marmot Review
• The Marmot Review 10 years on

Update README and add Code of Conduct

From NHS-R Way

Rename repository

It might be worth dropping the "QuartoBook" from the name as this describes how it's been built rather than what it contains. Perhaps then expanding on HIQ to health-inqualities-notebook or something similar?

2 placeholder pages have no content

The placeholder pages "rural" and "Summary" have no content. We should remove them until they are needed.

Pages are not publishing in the right format

Nomis

https://www.nomisweb.co.uk/datasets/pestsyoaoa - then click on the green "Query data" button (I can try to find the right URL for the dataset you are querying)

{nomisr} https://github.com/ropensci/nomisr

Remove tidyverse loading message

Possibly best in the _quarto.yml add message: true as well as echo and eval

health-inequalities-notebook/content/imd.qmd

Line 91 in e1f5ca7

library(tidyverse)

Add README

It would be great to add a README when time allows, I was just thinking about showing somebody but there isn't anything to link to yet

Add a page on sex/gender

Including how to deal with trans and intersex patient data.

Dependency introduced to {myrmidon} package

Using renv::status() {myrmidon} is not shown as not being used so this may be from some dependency code from another package like {NHSRpostcodetools}?