Data Pre-Processing for Bacterial Genome-Wide Association Studies


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Documentation for package ‘prewas’ version 1.1.1

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collapse_snps_into_genes Collapse SNPs into the gene(s) which they are from
collapse_snps_into_genes_by_impact Collapse SNPs into the gene(s) which they are from and by snpeff impcat
gff GFF3 file for example genomes
outgroup Name of outgroup in the phylogenetic tree.
prewas Preprocess SNPs before bGWAS
results Results from running prewas() on the example data.
snpeff_vcf Nucleotide variants in example genome samples with snpeff annotations.
tree Phylogenetic tree of example genomes
vcf Nucleotide variants in example genome samples