gwasurvivr

The software tool "gwasurvivr" addresses the need to perform survival analyses with millions of single nucleotide polymorphisms (SNPs). Developed as an R package, gwasurvivr offers a straightforward interface for conducting genome-wide survival analyses using variant call format (VCF) files from Michigan or Sanger imputation servers and IMPUTE2 or PLINK files. To enhance the efficiency of optimizing parameter estimates in the Cox model, gwasurvivr modifies the R package survival. The approach involves fitting covariates in the model without the SNP initially, and these parameter estimates are then used as initial points, reducing the number of iterations needed for convergence.