Use pangenome outputs for GWAS
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
genes{:bash}
:file
A presence/absence matrix of genes in the pan-genome
*.csv
traits{:bash}
A CSV file containing trait information per-sample
tree{:bash}
A Newick formatted tree for phylogenetic analyses
*.{dnd,nwk,treefile}
csv{:bash}
*.csv{:bash}
Gene associations in a CSV file per trait
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
Microbial pan-GWAS using the output from Roary
