issue about mqqplot anno="GENENAME"

Cloufield / gwaslab

A Python package for handling and visualizing GWAS summary statistics. https://cloufield.github.io/gwaslab/

GNU General Public License v3.0

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issue about mqqplot anno="GENENAME" #54

Closed hmutanqilong closed 9 months ago

hmutanqilong commented 9 months ago

Hi, After updating the gwaslab package to version 3.4.24, I noticed that when plotting the Manhattan plot for summary stats files and using anno="GENENAME" for annotation, the log displays "-skip annotating". I believe this may be a minor bug.

this is the log and plot:

Cloufield commented 9 months ago

Hi, the threshold for annotation and the dashed signiifcance line is decoupled. You can try adding sig_level_lead = 5e-6 to change the threshold for selecting lead variant for annotation (default is 5e-8).

hmutanqilong commented 9 months ago

Thanks a lot and will try it~