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suchestoncampbelllab / gwasurvivr

GWAS Survival Package in R
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empty output file for SNP*covariate interaction #32

Open damichalek opened 1 year ago

damichalek commented 1 year ago

Hey!

When I run michiganCoxSurv function with the inter.term argument, the output file is empty. However, I still get the file with removed SNPs. There is no errors or warnings. The same issue persists when I run it on the example (https://bioconductor.org/packages/devel/bioc/vignettes/gwasurvivr/inst/doc/gwasurvivr_Introduction.html#312_SNP_with_covariate_interaction)

I'll appreciate your help with resolving this issue, thank you!

xulinlinpek commented 6 months ago

Hello, may I ask if you can successfully run the interaction terms? I always encounter errors when running them. "Error in inter.term %in% covariates : object 'covariates' not found". Could you please advise on how to solve this issue? Thank you!

damichalek commented 6 months ago

Hello, unfortunately I haven't been able to successfully run the interaction terms. I finally decided to use coxph R package instead. Hope this helps a little bit!

xulinlinpek commented 6 months ago

Thank you very much for you reply!