put back qvalue calculation after permutation step

RajLabMSSM / QTL-mapping-pipeline

A snakemake pipeline for QTL mapping. Based on the GTEX pipeline

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put back qvalue calculation after permutation step #16

Open jackhump opened 3 years ago

jackhump commented 3 years ago

Currently users have to manually append the qval column.

There is an R script to do this called interaction_qvalue.R. It needs fixing as currently it tries to work on interaction QTL results only. Make this work @bzmull !

jackhump commented 3 years ago

so if a normal QTL run then make qvalues of "pval_perm"