How to generate manhatton plot from Scoary results

AdmiralenOla / Scoary

Pan-genome wide association studies

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How to generate manhatton plot from Scoary results #102

Closed sekhwal closed 2 years ago

sekhwal commented 2 years ago

Hi, I got the separate output .csv files of each phenotype from Scoary. Please let me know how to proceed for the visualization the results manhatton plot.

AdmiralenOla commented 2 years ago

Hi @sekhwal. Scoary doesn't automatically create Manhattan plots. It should be fairly simple to just extract your gene names/positions and p-values though. If you know how to use R I recommend starting with this: https://r-graph-gallery.com/101_Manhattan_plot.html