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LOCARNA_DEVIATION(1) User Commands LOCARNA_DEVIATION(1)

locarna_deviation - manual page for locarna_deviation (LocARNA 2.0.0)

deviation <aln-file> <ref-aln-file>

locarna_deviation - compare an alignment to a reference alignment

By calculating similarity measures of an alignment to a reference alignment, this small program based on the locarna library is useful for benchmarking alignment tools.

<aln-file>
alignment file in clustalw format
<aln-ref-file>
reference alignment file in clustalw format

The sequences of <aln-file> have to be contained in the alignment of <aln-ref-file>.

In addition to the deviation, print match sps and shift score

November 2022 locarna_deviation (LocARNA 2.0.0)

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