GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.html https://www.biorxiv.org/content/10.1101/720458v1
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IGV not finding sequence from bam file generated from a graphmap2 sam file #25
Hi,
I have Oxford Nanopore DNA sequences (from Plasmidsaurus) that I'm generating sam files through graphmap2, and ultimately making sorted bam files. However, the bam files show no sequence when I load them into IGV. The reference fasta is only 700bp long. My guess you could look at an output sam file and tell me the issue, but I can send you whatever files would help. I would appreciate any kind of direction you might give.
Hi, I have Oxford Nanopore DNA sequences (from Plasmidsaurus) that I'm generating sam files through graphmap2, and ultimately making sorted bam files. However, the bam files show no sequence when I load them into IGV. The reference fasta is only 700bp long. My guess you could look at an output sam file and tell me the issue, but I can send you whatever files would help. I would appreciate any kind of direction you might give.
Thanks,
Patrick
Example_part.sam.txt