I am pretty new to genomics and I just received a genotype file. I was using other commands in R and it was too slow. I have decided to use SnpStats package, but I am not being able to read my file.
My file is a dataframe file with 10,000 rows (animals) and 600,000 columns (SNPs) coded as 0,1 and 2. I found several functions to transform it to SNPstats object, but all of them do not apply to my case e.g. read.snps.long is for one call per row, etc.
Any help for me to get started?
Thanks in advance.