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3 hours ago by

Hi,
I try to use Snap aligner (snap.cs.berkeley.edu/) and view the result in Igv for some viruses.
Here is the Snap output:
Snap output

After that, I use samtools to index and sort the .sam file for .bam and .bam.bai. (They are not 0 bytes.)
I added the links to Igv (js) and this is what I see:
Igv

The files I used are working in Bowtie for example, so they cannot be the problem.
What am I missing here?

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