bcftools concatenation error
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Entering edit mode
5.8 years ago
GK1610 ▴ 120

I have 22 vcf files from each chromosomes. I am try ing to concatenate the vcf files

bcftools concat -f files.txt -Oz > merged.vcf

I keep getting this error:

chromosome 9 is not contiguous, consider running with -a.

How can I resolve this issue?

SNP bcftools • 3.0k views
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Entering edit mode
5.8 years ago

Well....why can't you run it with -a?

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