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Compare 4 vcf files with vcftools

mmm I tried with vcftools and --diff to see which snps, indels... share 4 individuals from a family. But with this code seems just compare two individuals

vcftools --vcf 2.vcf --diff  2.vcf --diff 3.vcf --diff 4.vcf --out compareall.xls

so at end I did like someone posted in this forum

cat 2.vcf 4.vcf 10.vcf > 2410.vcf

vcftools --vcf 2410.vcf --recode --recode-INFO-all --diff padre.vcf --out compareall.xls

I do right?

Isn't another way to do like on first stage?

Thanks :)

vcf

see if this tool will work.

well no idea how...but I managed to install taboo

now i get this

taboo compare sample2.sorted.vcf sample10.sorted.vcf > results.txt
taboo compare sample*.sorted.vcf > results.txt


both codes Aborted!

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