BEDtools merge output
Hello, bedtools merge can take several input types: <BED/GFF/VCF/BAM> , my question is whether output is always in BED format? For example if I run the command bedtools merge -i example.vcf, output will be in BED format and not VCF format?
Thanks in advance!
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Ram
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tea.vuki •
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tea.vuki •
2 answers
Hello, Bedtools merge returns bed files, even with VCF input.
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raphael.B •
try merge command in VCFtools , also there many many others tools in the net.
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ahmad mousavi
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If you are concerned about the applicability of
bedtools mergeto VCF files, consider usingbcftoolsinstead: https://samtools.github.io/bcftools/bcftools.html