Hi,
I am interested in hearing from anyone who has successfully used the combination of bwa and samtools to identify SNPs from paired SOLiD reads. Working with simulated reads at the moment I am getting nice alignments but my pileup output from samtools is pretty wacky... so I'd like to know if in anyone else's hands this can actually work.
Thanks
I am interested in hearing from anyone who has successfully used the combination of bwa and samtools to identify SNPs from paired SOLiD reads. Working with simulated reads at the moment I am getting nice alignments but my pileup output from samtools is pretty wacky... so I'd like to know if in anyone else's hands this can actually work.
Thanks