@cafelton has noted that minimap2 splice junction correction can overcorrect, losing isoforms.
Consider removing the from flair align or understand the use cases and document them.
If removed, we should still recommend against using it in separate minimap2 alignments.
Also, discuss with Max/Heng.
@cafelton has noted that minimap2 splice junction correction can overcorrect, losing isoforms.
Consider removing the from flair align or understand the use cases and document them.
If removed, we should still recommend against using it in separate minimap2 alignments.
Also, discuss with Max/Heng.