finding gene variation using Fasta files

I have 50 genes and I want to find each genes variation(SNPs) in 400 genomes. All genes and genomes are in fasta format only. How is it possible?

snp genome

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updated 4.0 years ago by Ram

• written 10.6 years ago by Eva_Maria

1 answer

If you have the sequences aligned you can use:

https://github.com/zeeev/popFastaaa

samtools faidx MSA.fa
./SNP -s name  -f MSA.fa

• 0 views • link

updated 6.6 years ago by Ram

• written 10.6 years ago by Zev.Kronenberg

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