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Update paftools.js (#1145)
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In mapeval "-Q INT" reports wrong alignments with mapQ>=INT, not with mapQ>INT
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pesho-ivanov authored Jan 3, 2024
1 parent bc588c0 commit fc2e160
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion misc/paftools.js
Original file line number Diff line number Diff line change
Expand Up @@ -2076,7 +2076,7 @@ function paf_mapeval(args)
warn("Usage: paftools.js mapeval [options] <in.paf>|<in.sam>");
warn("Options:");
warn(" -r FLOAT mapping correct if overlap_length/union_length>FLOAT [" + ovlp_ratio + "]");
warn(" -Q INT print wrong mappings with mapQ>INT [don't print]");
warn(" -Q INT print wrong mappings with mapQ>=INT [don't print]");
warn(" -m INT 0: eval the longest aln only; 1: first aln only; 2: all primary aln [0]");
exit(1);
}
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