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bioRxiv · 10.1101/2022.05.02.490206

H3AGWAS : A portable workflow for Genome Wide Association Studies

Brandenburg, J.-T.·Clark, L.·Botha, G.·Panji, S.·Baichoo, S.·Fields, C. J.·Hazelhurst, S.
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Abstract

BackgroundGenome-wide association studies (GWAS) are a powerful method to detect associations between variants and phenotypes. A GWAS requires several complex computations with large data sets, and many steps may need to be repeated with varying parameters. Manual running of these analyses can be tedious, error-prone and hard to reproduce. ResultsThe H3AGWAS workflow from the Pan-African Bioinformatics Network for H3Africa is a powerful, scalable and portable workflow implementing pre-association analysis, implementation of various association testing methods and postassociation analysis of results. ConclusionsThe workflow is scalable -- laptop to cluster to cloud (e.g., SLURM, AWS Batch, Azure). All required software is containerised and can run under Docker on Singularity.

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Brandenburg, J.-T., Clark, L., Botha, G., Panji, S., Baichoo, S., Fields, C. J., Hazelhurst, S.. 2022-05-04. H3AGWAS : A portable workflow for Genome Wide Association Studies. https://doi.org/10.1101/2022.05.02.490206

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