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Is there any one familiar with analysis of #nanopore #longreads ?
I'm having some bizarre issues when using #minimap2 to align them and I'm almost out of ideas of what to try next...
Here's an explanation of my issue
@ChristosArgyrop Thank you so much for the tip! I will definitely try that when back from holidays (no alignments allowed at Christmas! 😀 )
@nicolaromano don't use minimap2. We gave up and went back to blastn ; extra time is worth it .
(Granted this was a somewhat unusual application of #nanopore sequencing, but we had faced issues with minimap2 even before our microRNA #sequencing escapades). If you find the time it takes to blast unacceptable, try Magic-Blast. It seems to work better than minimap2.
https://qoto.org/@biorxivpreprint/109532523959529874