Description Usage Arguments Format Examples
Analog to Biostrings
there are a few objects, which should only be
used internally, but may be of use to other package developers.
Otherwise take care.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 | DOTBRACKET_CHAR_VALUES
DOTBRACKET_ALPHABET
STRUCTURE_NEUTRAL_CHR
STRUCTURE_OPEN_CHR
STRUCTURE_CLOSE_CHR
## S4 replacement method for signature 'DotBracketDataFrame'
x[i, j, ...] <- value
## S4 replacement method for signature 'CompressedSplitDotBracketDataFrameList'
colnames(x) <- value
|
x, i, j, ..., value |
See DataFrame. |
a integer
vector of length 9 containing the integer values
of the dotbracket alphabet
a character
vector of length 9 containing the single
characters of the dotbracket alphabet
a character
vector of length 1 containing the character for
unpaired positions
a character
vector of length 4 containing the opening
character of the dotbracket alphabet
a character
vector of length 4 containing the closing
character of the dotbracket alphabet
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 | DOTBRACKET_CHAR_VALUES
DOTBRACKET_ALPHABET
STRUCTURE_NEUTRAL_CHR
STRUCTURE_OPEN_CHR
STRUCTURE_CLOSE_CHR
# the replace method for a DotBracketDataFrame had to be reimplemented
# because of the requirement of columns for a DotBracketDataFrameList and
# DotBracketDataFrame
data("dbs", package = "Structstrings")
dbdfl <- getBasePairing(dbs)
# Elements are returned as DotBracketDataFrames
dbdf <- dbdfl[[1]]
dbdfl[[1]] <- dbdf
dbdfl[1] <- dbdfl[1]
|
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