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2010 Dec 21
3
Performing basic Multiple Sequence Alignment in R?
...ange.the.letters] <- new.letters
return(x)
}
change.letters(original.seq)
insert.missing.values <- function(x) change.letters(x, 3, "-")
insert.missing.values(original.seq)
seqS2 <- t(apply(seqS, 1, change.letters))
seqS3 <- t(apply(seqS2, 1, insert.missing.values))
seqS4 <- apply(seqS3,1, function(x) {paste(x, collapse = "")})
require(stringr)
# library(help=stringr)
all.seqS <- str_replace(seqS4,"-" , "")
# how do we allign this?
data.frame(Real_sequence = seqS4, The_sequence_we_see = all.seqS)
I understand that if all I ha...