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ZENODO
Software . 2026
License: CC BY
Data sources: ZENODO
ZENODO
Software . 2026
License: CC BY
Data sources: Datacite
ZENODO
Software . 2026
License: CC BY
Data sources: Datacite
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Uganda-HbS-malaria-distance: Reproducible workflow for spatial HbS differentiation analysis linking PfPR2–10 and geographic distance

integration_instructionsResearch softwarekeyboard_double_arrow_right Software 21 Jan 2026Publisher:Zenodo
Authors: Paasi, George; Ndeezi, Grace; Kiyaga, Charles; Namazzi, Ruth; Mupere, Ezekiel; Munabi, Ian Guyton; Kiguli, Sarah; +2 Authors
Code repository: https://github.com/gpaasi/hbs-differentiation-uganda/tree/v1.0.1

doi: 10.5281/zenodo.18326005 , 10.5281/zenodo.18326006

Uganda-HbS-malaria-distance: Reproducible workflow for spatial HbS differentiation analysis linking PfPR2–10 and geographic distance

Abstract

This repository contains code, configuration templates, and documentation to reproduce a cross-sectional ecological spatial analysis of locus-specific structure at the sickle-cell variant (HbS) in HBB across Uganda. The workflow summarizes subregional genotype composition, heterozygosity, Hardy–Weinberg equilibrium, and Weir–Cockerham FST (global and pairwise), constructs genetic, geographic, and malaria-burden dissimilarity matrices (PfPR2–10), and evaluates joint associations using multiple matrix regression with randomization (MMRR). Secondary analyses include PCoA and dbRDA, with Mantel-family tests and a Rousset isolation-by-distance regression implemented as sensitivity analyses. Outputs include manuscript-ready tables and figures for reporting spatial heterogeneity in HbS burden and differentiation and its alignment with malaria transmission intensity and geography.

If you use this repository, please cite it as below.

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Keywords

isolation-by-distance, isolation-by-environment, sickle-cell, malaria, reproducible-research, public-health, PfPR2-10, HbS, dbRDA, Uganda, FST, HBB, genetic-differentiation, MMRR

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
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Average