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2. User Guide

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Mark Edward M. Gonzales edited this page May 4, 2024 · 13 revisions

  • Start RicePilaf by visiting http://localhost:8050/ on your browser (if installed locally) or by visiting any of the sites where RicePilaf is being served.

  • You will be greeted by the following screen.

    RicePilaf Home (Local)

  • In the input box, enter genomic intervals like so: Chr01:100000-200000. Multiple intervals should be separated by a semicolon like so: Chr01:100000-200000;Chr02:300000-400000. These intervals are obtained from LD-based clumping of significant GWAS SNPs or from QTL mapping studies.

  • Once you click the "Proceed to Analyses Menu", a menu appears as a sidebar on the left.

  • Each analysis type has its a dedicated user guide you can find from the sidebar of this wiki.

  • You can perform the analyses in any order, but it is recommended to go from top to bottom in sequential order.

  • The Reset All Analyses button clears the display of all the results you might have obtained and takes you to initial state of the app.

  • The Clear Cache button deletes all temporary and intermediate files that were generate by your analyses.

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