Comments (1)
Thanks for reporting this. My best guess is that there was an issue with the bind_rows
here:
https://github.com/kharchenkolab/numbat/blob/main/R/genotyping.R#L9-L12
Maybe the objects were not in the right class. To debug, I would manually read in the vcf and check if get_snps(vcf)
gives the desired result (a data.frame with SNP information).
Any additional information (how you ran the script, vcf output) would be helpful for me to reproduce the error.
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