Table 3.

List of evaluation of additional workflow implemented in H3AGWAS workflow. using AWI-Gen data set or 1000 genome project

Script	Test descriptive
qc/main.nf	QC of genotype 12,000 individuals from AWI-Gen project
finemapping/main.nf	Extraction of lead SNPs of cholesterol result from GEMMA
heritabilities/main.nf	Estimation of heritabilities of 4 phenotypes lipid using genotype and phenotype and/or summary statistics
formatdata/plk_in_vcf_imp	Transformation of PLINK after qc in vcf to prepared data for imputation
formatdata/vcf_in_plink.nf	Transformation of data imputed in PLINK format
meta/mtag-assoc.nf	Multi-trait analysis of genome-wide association performed using 4 lipid phenotypes
utils/build_example_data/main.nf	Build an example data set using diabetes phenotype from lead snps of GWAS catalog and 1000 genomes project genotype [34]