nyagakaj/acdc_publications_tracker

a tracker dashboard for all scientific publication outputs of Africa CDC,by authors, date of publication, journal name, title of the article, and division (business unit). # Africa CDC Publications Tracker (Shiny) A Shiny web app that fetches and visualizes **Africa CDC–affiliated** publications from PubMed. It features a polished UI, background (non-blocking) refresh, skeleton placeholders on first load, and clean charts with counts shown **inside** bars only. --- ## Table of Contents - Features - Screens - Tech Stack - Folder Structure - Requirements - Quick Start (Local) - Configuration - NCBI API Key (optional) - Batch Size / Limits - Deploy to shinyapps.io (Manual) - CI/CD: Auto-deploy from GitHub (Optional) - 1) Create shinyapps.io Token/Secret - 2) Add GitHub Repo Secrets - 3) Add GitHub Actions Workflow - Troubleshooting - Repo Checklist - License - Acknowledgements --- ## Features - **Fast UX & Resilience** - Background refresh using `promises` + `future::multisession` (UI never blocks) - First-load **skeleton placeholders** so the page never looks empty - Overlay **spinner card** during manual refresh (site remains usable) - **Clean Visuals** - Counts displayed **inside bars only**, with hover tooltips (no duplicated labels) - Adaptive left margin & height so **long author names** fit on the y-axis - Consistent **Africa CDC** color palette and polished CSS - **Better Author Handling** - Strips stray “Author/Authors” tokens - Case-insensitive de-duplication for unique author counts - **Robust PubMed Fetching** - Uses `rentrez` with `use_history = TRUE` and batching - PubMed query: ```text (Africa Centres for Disease Control[Affiliation] AND Prevention[Affiliation]) OR (Africa CDC[Affiliation]) ``` --- ## Screens - **Dashboard**: KPIs, publications over time (bars + trend line), top journals, top authors - **Author Explorer**: author picker, yearly trend, top journals, and a publications table - **Publications Table**: searchable/exportable DT table with PubMed/DOI links --- ## Tech Stack - R / **Shiny** - **dplyr**, **stringr**, **lubridate** - **plotly** (charts), **DT** (tables) - **rentrez** (PubMed API) - …