Hello, thank You, but it seems that trimEnds() requires DNAbin. I checked also other functions from ips, and it seems to be the same... Sincerely, V.
Dne úterý 2. listopadu 2021 12:13:06 CET jste napsal(a): > Dear Vojtech, > Did you check this https://rdrr.io/cran/ips/man/trimEnds.html > Franz > > > On 2. Nov 2021, at 11:38, Vojtěch Zeisek wrote: > > Hello, > > I try to trim protein alignments in R. I see del.colgapsonly() and > > del.rowgapsonly() from ape can trim only class DNAbin. As DNAbin as > > basically same matrix as AAbin (Isn't it?), I thought it should be > > easy. I commented out lines 3 and 4 in both del.colgapsonly() and > > del.rowgapsonly(), but it didn't lead to success. I haven't found > > any other way how to trim protein alignment in R similar to what > > these two function do. Is there any way? > > Sincerely, > > V. -- Vojtěch Zeisek https://trapa.cz/en/ Department of Botany, Faculty of Science Charles University, Prague, Czech Republic https://www.natur.cuni.cz/biology/botany/ https://lab-allience.natur.cuni.cz/ Institute of Botany, Czech Academy of Sciences Průhonice, Czech Republic https://www.ibot.cas.cz/en/ Computing cluster https://sorbus.ibot.cas.cz/en/start
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