DivAssociate is a workflow implemented in Nextflow to perform a GWAS using GEMMA's Linear Mixed Model algorithm. It uses genotyping data in VCF format and phenotyping data in a CSV file.
DivAssociate is a powerful workflow implemented in Nextflow that facilitates Genome-Wide Association Studies (GWAS). It efficiently processes a set of phenotypes provided in TSV format and genotypes in VCF format. The tool automates input preparation, ensuring that data is properly formatted for analysis.
For the GWAS analysis, DivAssociate utilizes the GEMMA software, a widely recognized tool known for its capability to perform efficient mixed linear models in genetic association studies.
One of the standout features of DivAssociate is its ability to generate Manhattan plots, which visually represent the GWAS results, allowing researchers to easily identify significant associations between genotypes and phenotypes. This streamlined workflow enhances the efficiency and accuracy of GWAS, making it an invaluable tool for researchers in the field of genetics and plant breeding.
NFDI4Biodiversity Use Case
DivPortal is a web app that visualizes and explores plant phenotyping trials. It uses a BrAPI server for the data backend and to visualize results and germplasm information. It also integrates a brokering service for analysis workflows between workflow managers and the connected BrAPI server.
