alphabet-method |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
colnames<--method |
Structstrings internals |
CompressedSplitDotBracketDataFrameList-class |
DataFrame for storing base pairing information |
CompressedSplitDotBracketDFrameList-class |
DataFrame for storing base pairing information |
convertAnnotation |
Convert between dot bracket annotations |
convertAnnotation-method |
Convert between dot bracket annotations |
DB |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
DBDF |
DataFrame for storing base pairing information |
DBDFL |
DataFrame for storing base pairing information |
DBS |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
dbs |
Structstrings example data |
DBSL |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
dotbracket |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
dotbracket-method |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
dotbracket<- |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
dotbracket<--method |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
DotBracketDataFrame |
DataFrame for storing base pairing information |
DotBracketDataFrame-class |
DataFrame for storing base pairing information |
DotBracketDataFrameList |
DataFrame for storing base pairing information |
DotBracketDataFrameList-class |
DataFrame for storing base pairing information |
DotBracketDFrame-class |
DataFrame for storing base pairing information |
DotBracketDFrameList-class |
DataFrame for storing base pairing information |
DotBracketString |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
DotBracketString-class |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
DotBracketStringSet |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
DotBracketStringSet-class |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
DotBracketStringSet-io |
Reading and writing DotBracketStringSet objects |
DotBracketStringSetList |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
DotBracketStringSetList-class |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
DOTBRACKET_ALPHABET |
Structstrings internals |
DOTBRACKET_CHAR_VALUES |
Structstrings internals |
encoding-method |
The DotBracketString, DotBracketStringSet and DotBracketStringSetList classes |
getBasePairing |
Accessing Dot Bracket annotation |
getBasePairing-method |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
getBasePairing-method |
Accessing Dot Bracket annotation |
getDotBracket |
Accessing Dot Bracket annotation |
getDotBracket-method |
Accessing Dot Bracket annotation |
getLoopIndices |
Accessing Dot Bracket annotation |
getLoopIndices-method |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
getLoopIndices-method |
Accessing Dot Bracket annotation |
LoopIndexList |
LoopIndexList: base pairing information as a list of integer values |
LoopIndexList-class |
LoopIndexList: base pairing information as a list of integer values |
nseq |
Structstrings example data |
readDotBracketStringSet |
Reading and writing DotBracketStringSet objects |
readStructuredRNAStringSet |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
saveDotBracketStringSet |
Reading and writing DotBracketStringSet objects |
SDBDFL |
DataFrame for storing base pairing information |
seqtype-method |
Structstrings internals |
SimpleSplitDotBracketDataFrameList-class |
DataFrame for storing base pairing information |
SimpleSplitDotBracketDFrameList-class |
DataFrame for storing base pairing information |
SplitDotBracketDataFrameList |
DataFrame for storing base pairing information |
Structstrings |
Structstrings: implementation of the dot bracket annotations with Biostrings |
Structstrings-data |
Structstrings example data |
Structstrings-internals |
Structstrings internals |
StructuredRNAStringSet |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
StructuredRNAStringSet-class |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
StructuredXStringSet |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
STRUCTURE_CLOSE_CHR |
Structstrings internals |
STRUCTURE_NEUTRAL_CHR |
Structstrings internals |
STRUCTURE_OPEN_CHR |
Structstrings internals |
subseq-method |
Structstrings internals |
subseq<--method |
Structstrings internals |
writeDotBracketStringSet |
Reading and writing DotBracketStringSet objects |
writeStructuredXStringSet |
StructuredRNAStringSet for storing DotBracketAnnotation alongside nucleotide sequences |
[<--method |
Structstrings internals |