gwas.log

PLINK v1.90b7.1 64-bit (18 Oct 2023)
Options in effect:
  --adjust qq-plot
  --bfile qc_final
  --covar pca.eigenvec
  --covar-number 3-6
  --logistic
  --out gwas

Hostname: Efras-MacBook-Air.local
Working directory: /Users/efra/Documents/LCG/5th/Statistical Genetics/gh/StatisticalGenomics/Project
Start time: Wed Nov 15 21:16:35 2023

Random number seed: 1700104595
24576 MB RAM detected; reserving 12288 MB for main workspace.
382054 variants loaded from .bim file.
1374 people (919 males, 455 females) loaded from .fam.
1374 phenotype values loaded from .fam.
Using 1 thread (no multithreaded calculations invoked).
--covar: 4 out of 20 covariates loaded.
Before main variant filters, 1374 founders and 0 nonfounders present.
Calculating allele frequencies... done.
Total genotyping rate is 0.992073.
382054 variants and 1374 people pass filters and QC.
Among remaining phenotypes, 707 are cases and 667 are controls.
Writing logistic model association results to gwas.assoc.logistic ... done.
--adjust: Genomic inflation est. lambda (based on median chisq) = 1.00686.
--adjust values (382054 variants) written to gwas.assoc.logistic.adjusted .

End time: Wed Nov 15 21:16:42 2023