Commit 4edfe2e2 authored by Uladzislava KHAURATOVICH's avatar Uladzislava KHAURATOVICH 💬
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Update !all_species_F_M_Wsnps.md

parent c3c219ab
......@@ -259,7 +259,12 @@ sed 's/ /\t/g' w_snps_coordinates.txt > w_snps_coordinates.log
vcftools --vcf head.sin.kaz.urm_filtered.vcf --positions w_snps_coordinates.log --recode --recode-INFO-all --out w_snps.vcf
#doesn't work!
#There is also command
vcftools --snps file_containing_snp_IDs.txt
#but our snpIDs - coordinates are not unique in the whole genome
```
Maybe if i change filtering i fill find more sites
```
#filter for quality and coverage
......
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