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neanderthals VCF file

Hi all,

I need VCF file for neanderthals, I already found Bam files for them in UCSC, but i need VCF file to have their SNP variation. i also found denisovian VCF file,but I want VCF file for neanderthals. can anybody help me?

thanks a lot

snp snp
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updated by Biostar Biostar • written by khatami.mahshid • khatami.mahshid

1 answer

Having the BAM file, you can generate a VCF file with samtools

samtools mpileup -v -u -f genome.fa your.bam > variants.vcf
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written by Antonio R. Franco Antonio R. Franco

The genoma.fa file is the fasta file used as reference for the mapping to generate the BAM file

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written by Antonio R. Franco Antonio R. Franco

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