SNPhylo
hi yzzhang, i appreciate your help. I have this project to find SNPs across 5 different population and build a phylogenetic tree. so, for my VCF file should i combine all the SNPs from all population into one VCf file and then run SNPhylo??
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I fed SNPhylo only a VCF file and it ran smoothly. If you use SNPhylo, please check the sam headers, it seems SNPhylo only accept number as chromosome header (e.g. >1 but not >chr1) at least for old SNPhylo version (2014.....). Hope it helps.Leave a comment:
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@sandesh
i am trying to run SNPhylo.do i need all the VCF, Simple SNP file and hapmap file ??or i need just one of these files.pls helpLeave a comment:
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convert vcf to hapmap
I was trying to use SNPhylo software.
I needed to combine multiple SNP vcf files together or use combined hapmap file.
Is there any way to get single vcf or hapmap file with multiple samples together?
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