H3AGWAS: a portable workflow for genome wide association studies.

ABSTRACT:

Background

Genome-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.

Results

The 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 post-association analysis of results.

Conclusions

The workflow is scalable-laptop to cluster to cloud (e.g., SLURM, AWS Batch, Azure). All required software is containerised and can run under Docker or Sing

SUBMITTER: Brandenburg JT 

PROVIDER: S-EPMC9675212 | biostudies-literature | 2022 Nov

REPOSITORIES: biostudies-literature