ukbflow: Streamlined Workflow for UK Biobank Data Extraction, Analysis, and Visualization

Provides a streamlined workflow for UK Biobank cloud-based analysis on the Research Analysis Platform (RAP). Includes tools for phenotype extraction and decoding, variable derivation, survival and association analysis, genetic risk score computation, and publication-quality visualization. For details on the UK Biobank resource, see Bycroft et al. (2018) <doi:10.1038/s41586-018-0579-z>.

Version: 0.3.3
Depends: R (≥ 4.1)
Imports: broom, cli, curl, data.table, dplyr, forestploter, gt, gtsummary, jsonlite, processx, rlang, survival, tidyselect, tools
Suggests: knitr, pagedown, pROC, rmarkdown, testthat (≥ 3.0.0), mockery, webshot2, withr
Published: 2026-04-07
DOI: 10.32614/CRAN.package.ukbflow (may not be active yet)
Author: Yibin Zhou ORCID iD [aut, cre]
Maintainer: Yibin Zhou <evanzhou.bio at gmail.com>
BugReports: https://github.com/evanbio/ukbflow/issues
License: MIT + file LICENSE
URL: https://github.com/evanbio/ukbflow, https://evanbio.github.io/ukbflow/
NeedsCompilation: no
Materials: README, NEWS
CRAN checks: ukbflow results

Documentation:

Reference manual: ukbflow.html , ukbflow.pdf
Vignettes: Association Analysis for UKB Outcomes (source, R code)
Authentication and Project Setup (source, R code)
Decoding UKB Column Names and Values (source, R code)
Survival Analysis Setup for UKB Outcomes (source, R code)
Deriving Disease Phenotypes from UKB Data (source, R code)
Extracting Phenotype Data (source, R code)
Exploring and Fetching RAP Files (source, R code)
Get Started with ukbflow (source, R code)
Genetic Risk Score (GRS) Analysis on UKB RAP (source, R code)
Installation Guide (source, R code)
Monitoring and Retrieving Extraction Jobs (source, R code)
Operational Utilities: Setup, Diagnostics, and Pipeline Tracking (source, R code)
Publication-Ready Visualisation (source, R code)
Smoking and Lung Cancer Risk: A Complete Analysis Workflow (source, R code)

Downloads:

Package source: ukbflow_0.3.3.tar.gz
Windows binaries: r-devel: not available, r-release: not available, r-oldrel: not available
macOS binaries: r-release (arm64): not available, r-oldrel (arm64): not available, r-release (x86_64): not available, r-oldrel (x86_64): not available

Linking:

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