Seperate males and females samples from trio.vcf
I have a file named trio_example.vcf and it contains 3 samples I am trying to follow the command to split the male and female sample out as I assume that all males are 0/1 and all females are 0/0.
bcftools view -f PASS -i 'GT~"0/0.*0/1.*0/1.*0/1.*0/1"' trio_example.vcf
But it does not work?After samples I want to use intersect command
• 809 views
•
link
written
by
anasjamshed
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
RNA-Seq
written by Muhammad •
-
Split trio vcf file
written by anasjamshed
-
How to remove shared SNP from a VCF with multiple individuals
written by cuamatzi •
-
How to get sample names and genotype for SNP in multi-sample VCF file with special occurence
written by User000
-
Select variants that exist in all samples from a merged VCF file using bcftools
written by Medhat
-
CNVkit: call sex chr - germline analysis
written by emma.a •
-
bcftools: DP filter based on chromosome and sex
written by bsmith030465
-
Allele Frequency(AF) for male and female samples
written by roalva1
-
Imputation of chromosome X using the Michigan imputation server
written by Floris Brenk
-
DESeq2 Design with Three Interactions
written by dustar1986
