Question: SNP calling from a scaffold.fa file
0
gravatar for shynilasanthi
2.6 years ago by
Sri Lanka
shynilasanthi30 wrote:

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 • 1.0k views
ADD COMMENTlink modified 2.6 years ago by pfs270 • written 2.6 years ago by shynilasanthi30
3
gravatar for pfs
2.6 years ago by
pfs270
USA/Boston
pfs270 wrote:

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

ADD COMMENTlink written 2.6 years ago by pfs270

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

ADD REPLYlink written 2.6 years ago by benv710

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

ADD REPLYlink written 2.6 years ago by shynilasanthi30
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