Nothing

```
translate <- function(seq, frame = 0, sens = "F", numcode = 1, NAstring = "X",
ambiguous = FALSE)
{
if(any(seq%in%LETTERS)){
seq <- tolower(seq)
}
#
# Take the reverse complementary strand when required:
#
if(sens == "R") seq <- comp(rev(seq), ambiguous = ambiguous)
#
# Transform the sequence in its numerical encoding equivalent
# with textbook order, that is t = 0, c = 1, a = 2, g = 3
#
seqn <- s2n(seq, levels = s2c("tcag"))
#
# Compute the length of the sequence when its length in codons
# is an integer:
#
l <- 3*((length(seq) - frame) %/% 3)
#
# Compute the indices for the first codon positions:
#
c1 <- seq(from = frame + 1, to = frame + l, by = 3)
#
# Compute the indices of codons in the translation table:
#
tra <- 16*seqn[c1] + 4*seqn[c1 + 1] + seqn[c1 + 2] + 1
#
# Get the translation table:
#
code <- s2c(SEQINR.UTIL$CODES.NCBI$CODES[numcode])
#
# Translate the sequence:
#
result <- code[tra]
#
# Replace missing values by the string for missing amino-acids:
#
result[is.na(result)] <- NAstring
#
# More work is required if ambiguous bases are handled:
#
if(ambiguous){
toCheck <- which(result == NAstring)
for( i in toCheck ){
codon <- seq[c1[i]:(c1[i]+2)]
allcodons <- as.vector(outer(as.vector(outer(amb(codon[1]), amb(codon[2]), paste, sep = "")), amb(codon[3]), paste, sep = ""))
allaminoacids <- sapply(allcodons, function(x) translate(s2c(x), numcode = numcode, ambiguous = FALSE))
if( all(allaminoacids == allaminoacids[1])) result[i] <- allaminoacids[1]
}
}
return( result )
}
```

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