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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:

Please use the canonical form https://CRAN.R-project.org/package=ukbflow to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.