Using binary or discrete data with phangorn
If data are not sequence alignment an
phyDat object then there are generic functions
as.phyDat() in phangorn to transform matrices and data.frames into phyDat objects.
For example you can read in your data with
read.csv(), but you might need to transpose your data. For matrices
as.phyDat() assumes that the entries each row belongs to one individual (taxa), but for data.frame each column. For binary data you can transform these with a command like (depending how you coded them):
as.phyDat(data, type="USER", levels = c(0, 1)) as.phyDat(data, type="USER", levels = c(TRUE, FALSE))