Description Usage Arguments Value Author(s) References See Also
View source: R/msa_set_scoreR.R
MSA reliability scores (Penn et al. 2010)
1 | msa_set_scoreR(ref, alt)
|
ref |
An object of class |
alt |
single MSA or list of MSAs or path to alternative files. Single
MSAs and list members should be of class |
matrix containing following scores:
residue_pair_score: if one alternative MSA is supplied then the score is 1 if a residue pair was identically aligned as in the reference MSA and 0 otherwise. If more than one alternative MSA is used, then the average of the residue pair scores from all comparisons
Franz-Sebastian Krah
Penn et al. 2010. An alignment confidence score capturing robustness to guide tree uncertainty. Molecular Biology and Evolution 27:1759–1767.
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