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Merge remote-tracking branch 'remotes/origin/master'

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Heng Li
2024-10-12 23:28:38 -04:00
parent 3e1ab2951d 69e3629916
commit 7d69334e69
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FAQ.md
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Without `-a`, `-c` or `--cs`, minimap2 only finds *approximate* mapping Without `-a`, `-c` or `--cs`, minimap2 only finds *approximate* mapping
locations without detailed base alignment. In particular, the start and end locations without detailed base alignment. In particular, the start and end
positions of the alignment are impricise. With one of those options, minimap2 positions of the alignment are imprecise. With one of those options, minimap2
will perform base alignment, which is generally more accurate but is much will perform base alignment, which is generally more accurate but is much
slower. slower.
minimap2.1
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@@ -758,7 +758,7 @@ s2 i Chaining score of the best secondary chain
NM i Total number of mismatches and gaps in the alignment NM i Total number of mismatches and gaps in the alignment
MD Z To generate the ref sequence in the alignment MD Z To generate the ref sequence in the alignment
AS i DP alignment score AS i DP alignment score
SA Z List of other supplementary alignments SA Z List of other supplementary alignments (with approximate CIGAR strings)
ms i DP score of the max scoring segment in the alignment ms i DP score of the max scoring segment in the alignment
nn i Number of ambiguous bases in the alignment nn i Number of ambiguous bases in the alignment
ts A Transcript strand (splice mode only) ts A Transcript strand (splice mode only)