I am new to using BFast. I was able to successfully install it. I now
have question regarding mapping the reads.
I have two SOLiD csfasta paired end files,
reads1.csfasta - 50 bp
reads2.csfasta - 35 bp
What is best way to align them using BFast for the human genome? If I
am using two separate commands how to merge them to obtain a single
bam/sam file?
I would want to use GATK pipeline for making SNP calls and so how do I
make sure that the aligned reads has good default base quality?
I would greatly appreciate the reply.
Thanks
-Kasthuri
have question regarding mapping the reads.
I have two SOLiD csfasta paired end files,
reads1.csfasta - 50 bp
reads2.csfasta - 35 bp
What is best way to align them using BFast for the human genome? If I
am using two separate commands how to merge them to obtain a single
bam/sam file?
I would want to use GATK pipeline for making SNP calls and so how do I
make sure that the aligned reads has good default base quality?
I would greatly appreciate the reply.
Thanks
-Kasthuri