SNP calling from a scaffold.fa file
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4.8 years ago

I have assembled my illumina Rad-seq paired end short reads using Abyss. My question is, is it possible to call SNP using a reference genome for the assemblies? the output is in fasta format. Thank you in advance.

abyss SNP calling fasta • 1.7k views
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4.8 years ago
pfs ▴ 280

Is this what you are looking for? http://sjackman.ca/abyss-activity/

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Thanks, @pfs! I was just about to suggest the same.

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Yes, This is exactly what I was looking for. Thank you very much!

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