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Public-Health-Scotland

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Functions to assist with programmatically launching Workbench Jobs on the Kubernetes cluster, and scheduling these to run a specific time.

scotpho-profiles-tool

ScotPHO profiles tool code

phsmethods

An R package to standardise methods used in Public Health Scotland (https://public-health-scotland.github.io/phsmethods/)

R-Resources

HTML

phstemplates

Standard R templates and project structure for Public Health Scotland (https://public-health-scotland.github.io/phstemplates/)

Hospital-Acute-Activity

Code to create Public Health Scotland's Hospital Acute Care Activity publication

phsstyles

Standard Graphic Styles for use in Public Health Scotland (https://public-health-scotland.github.io/phsstyles/)

GitHub-guidance

Guidance and best practice rules for using GitHub within Public Health Scotland

Toolkit

Templates and resources for transforming publications

resources

Useful resources for the software and methodologies used by the Transforming Publishing team

r-project-structure

A template for R projects

hsmr

Reproducible Analytical Pipeline of the Hospital Standardised Mortality Ratio (HSMR) quarterly publication

scotpho-indicator-production

Code used to prepare data for indicators in ScotPHO's profiles

phsopendata

Functions to extract and interact with data from the Scottish Health and Social Care Open Data platform.

learn-git

covid-wider-impacts

Code for the COVID-19 wider impacts on the health care system publication

PHI-useR-group

HTML

learnr-online

An interactive, online introduction to R training for employees in Public Health Scotland.

measuring-inequalities

slfhelper

An R package for working with the SLFs

Life-Expectancy

Code to generate ScotPHO life expectancy and healthy life expectancy estimates published in ScotPHO online profiles tool

scotpho-plotly-charts

Charts for ScotPHO's website using Plotly

r-pubhealth-workshop

Presentations, code and exercises for workshop on tools for public health data

HTML

Python-Resources

A place to share useful resources on Python. https://nbviewer.jupyter.org/github/Public-Health-Scotland/Python-Resources/blob/master/Python%20Guidance%20for%20PHI.ipynb?flush_cache=true

Jupyter Notebook

technical-docs

Technical documentation, including guidance and best practice for Public Health Scotland (PHS)

Open-Data

Examples of how to use the API of https://www.opendata.nhs.scot/

learnr-intro

rshiny-project-structure

Mental-Health-Inpatient-Activity

R-exercise

A short R exercise for Public Health Scotland analysts interested in creating a Reproducible Analytical Pipeline

source-linkage-files

This repo is for the syntax used for the PHS Source Linkage File project

Scheme

covid-19_respiratory_surveillance_dashboard

A Public Health Scotland R shiny app for surveillance of COVID-19 and respiratory illnesses in Scotland

social-care

SBSP_restartMetrics

rmarkdown-training-online

An interactive, online introduction to R Markdown training for employees in Public Health Scotland.

HTML

dementia-pds

Reproducible Analytical Pipeline (RAP) for Dementia Post-Diagnostic Support (PDS) management reports and publication.

knowledge-base

Web app for PHS staff to access training and guidance resources and social content related to Data Science.

Vue

SPBAND

Code to produce the Scottish Pregnancy, Births and Neonatal Data dashboard (SPBAND)

SPSS-Resources

Scheme

learn-shiny

HTML

GyleCodeClub

Notes and resources for the Gyle Code Club

Python

covid-vulnerability

ScotPHO COVID-19 Community Vulnerability

ioslides-structure

A template for ioslides

HTML

parquet_workshop

HTML

git-guide

A quick start guide for using Git and GitHub: https://public-health-scotland.github.io/git-guide/

CSS

AHP-Long-Waits

AAA-KPIs

scotpho-lookups

Preparing geography and population lookups used to produce indicator data

delayed-discharges-monthly

RAP (Reproducible Analytical Pipeline) of the Delayed Discharges monthly publication

Folder-Structure-RMD

R markdown scripts for the publication template

phsmisc

What the Package Does (One Line, Title Case)

qpi-dashboard

Processing of Quality Performance Indicators data, as part of the National Cancer Quality Programme (Scotland).

cocin-scotland

Analysis of Scottish data from ISARIC CoCIN dataset

CASES

Cancer and Adult Screening Engagement and Skills repository

msg-indicators

Code for creating data for the MSG Indicators

health-and-care-experience-survey-2023

This repository contains the code for analysing the 2023 health and care experience survey

AAA-quarterly-extract

NTTS2019

Slides for NTTS Conference 2019

HTML

scotpho-website-updates

Code used to prepare data for ScotPHO's website

COVID-19-Publication-Dashboard

Dashboard for weekly COVID-19 publication

d3-linechart

This is the first draft of a template to create line charts with options to select NHS Boards and locations within NHS Boards.

JavaScript

phsverse

Easily install and load packages developed in PHS

end-of-life-pub

Reproducible Analytical Pipeline (RAP) for Percentage of End of Life Spent at Home or in a Community Setting Publication

DRHS_Data_Trend

DRHS data trend page

RAP-presentation

HTML

P1-BMI

Primary 1 Body Mass Index Publication repo

posit-workbench-install-gt

Details of how to install the {gt} package on Posit Workbench

RAP-Awareness-Session-2019

CSS

CAPTND

A patient-level dataset for outpatient mental health in Scotland.

nss-r-resources-app

App to host different resources on R for NSS analysts

Waiting_Times_Clinical_Prioritisation

This repository contains the Reproducible Analytical Pipeline (RAP) to produce the quarterly statistics on clinical prioritisation, part of the Stage of Treatment (SoT) publication.

smr1_admissions_table

SBSS

Reproducible Analytical Pipeline of the Scottish Bowel Screening Programme Statistics (SBSS) publication

scotpho-profiles-app

Code behind re-development of online ScotPHO profiles shiny app

cancer-patient-experience-survey-2024

This repository contains the code for analysing the 2024 cancer patient experience survey

delayed-discharges-monthly-archived

Reproducible Analytical Pipeline of the Delayed Discharges monthly publication

ahp_dsa

AHP MSK data science accelerator

hepatitisc-international-chart

national-indicators

Code for production of the National Indicators

NIPT-Evaluation-Public

disclosure_control

Performs Statistical Disclosure Control (SDC) on a variety of datasets to reduce the risk of patients being identified within a dataset.

dose_instruction_parser

Parsing prescription dose instructions using Named Entity Recognition and rules

Python

cancer-routes-to-diagnosis

Emergency and Non-Emergency Routes to Cancer Diagnosis

ahp_msk_dashboard

AHP MSK dashboard

care-and-wellbeing-dashboard

package-dev-guidance-site

Repo for a small website of resource on PHS/general best practice for package development

CSS

National-Stats-Template

Templates for producing National Statistics Publications using RMarkdown

LIST-examples

A collection of best practice examples for use by LIST team members.

Public-Health-Scotland/posit-workbench-job-scheduler

Public-Health-Scotland

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