Vcftools gives error when extracting snps
Hi,
I want to extract SNPs from vcf based on list of rsids. From this I used command
vcftools --vcf <vcf_file> --snps <rsID_filename> --recode --recode-INFO-all
But it is giving me error.
stat error: No such file or directory
Error: Can't determine file type of --recode-INFO-all
Please tell me how to correct it.
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this cannot be the command you used. This is just the synopsis. What is the command you typed in the terminal.
This is the command I typed on terminal.
I would say you have no idea of what you're doing :-) Please read h.mon's answer and read about linux I/O redirection : https://www.digitalocean.com/community/tutorials/an-introduction-to-linux-i-o-redirection
I took command from here. Retrieve Single Vcf From List Of Snp Rs#