SNP calling from a scaffold.fa file
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.
• 2,980 views
•
link
updated
by
pfs
•
written
by
shynilasanthi •
•
written
by
shynilasanthi •
1 answer
Is this what you are looking for? http://sjackman.ca/abyss-activity/
Yes, This is exactly what I was looking for. Thank you very much!
• 0 views
•
link
written
by
shynilasanthi •
Log in to answer this question.
More posts like this
-
SNP calling from plant whole genome assemblies
written by liorglic
-
making a custom reference
written by shynilasanthi •
-
ABYSS can not handel my project on 32G RAM
written by kk.mahsa
-
Large Plant genome Assembly using ABYSS
written by mehtaaditya99 •
-
Can I use Abyss assemble a huge genome using limit RAM?
written by nifei1998 •
-
Transposons and Pacbio
written by burnsro •
-
Inferring most probable integer copy number (repeat count) of contigs of a draft genome
written by misaghb •
-
Copy number (repeat count) of assembled contigs
written by misaghb •
-
Soap2 Alignment Output For Snp Calling
written by Abrari •
-
Snp Cluster Analysis
written by jackuser1979
