Counting protein sequence differences — countSeqDiffs • evolved

countSeqDiffs counts the number of protein differences among two sequences of proteins within the same "ProteinSeq" object.

Usage

countSeqDiffs(x, taxon1, taxon2)

Arguments

x: A "ProteinSeq" object containing proteins from taxon1 and taxon2.
taxon1: A character giving the common name of the first species that will be compared. Must be a name present in x.
taxon2: A character giving the common name of the second species that will be compared. Must be a name present in x.

Value

A integer giving the number of protein differences between taxon1 and taxon2.

See also

Other macroevolution: calcFossilDivTT(), checkAndFixUltrametric(), estimateSpeciation(), fitCRBD(), lttPlot(), plotPaintedWhales(), plotProteinSeq(), plotRawFossilOccs(), simulateBirthDeathRich(), simulateTree()

Author

Matheus Januario, Dan Rabosky, Jennifer Auler

Examples

countSeqDiffs(cytOxidase, "human", "chimpanzee")
#> [1] 4

countSeqDiffs(cytOxidase, "human", "cnidaria")
#> [1] 161

countSeqDiffs(cytOxidase, "chimpanzee", "cnidaria")
#> [1] 162