A B C D F G I L M N P R S T V W Y misc
!=,ANY,BString-method | The BString class |
!=,ANY,BStringViews-method | The BStringViews class |
!=,BString,ANY-method | The BString class |
!=,BString,BString-method | The BString class |
!=,BString,BStringViews-method | The BStringViews class |
!=,BStringViews,ANY-method | The BStringViews class |
!=,BStringViews,BString-method | The BStringViews class |
==,ANY,BString-method | The BString class |
==,ANY,BStringViews-method | The BStringViews class |
==,BString,ANY-method | The BString class |
==,BString,BString-method | The BString class |
==,BString,BStringViews-method | The BStringViews class |
==,BStringViews,ANY-method | The BStringViews class |
==,BStringViews,BString-method | The BStringViews class |
AAString | The AAString class |
AAString-class | The AAString class |
AA_ALPHABET | The AAString class |
adjacentViews | Constructor-like functions and generics for BStringViews objects |
alignScore | quadratic-space, simple gap implementation of Needleman-Wunsch global alignment algorithm |
alphabet,AAString-method | The AAString class |
alphabet,DNAString-method | The DNAString class |
alphabet,RNAString-method | The RNAString class |
alphabetFrequency | Function to calculate the frequency of letters in a biological sequence |
alphabetFrequency,BString-method | Function to calculate the frequency of letters in a biological sequence |
alphabetFrequency,BStringViews-method | Function to calculate the frequency of letters in a biological sequence |
alphabetFrequency,DNAString-method | Function to calculate the frequency of letters in a biological sequence |
alphabetFrequency,RNAString-method | Function to calculate the frequency of letters in a biological sequence |
AMINO_ACID_CODE | The Single-Letter Amino Acid Code |
as.character,BString-method | The BString class |
as.character,BStringViews-method | The BStringViews class |
as.complex | Converting a DNAString to a vector of complexes |
as.complex,DNAString-method | Converting a DNAString to a vector of complexes |
as.list,BStringViews-method | The BStringViews class |
as.matrix,BStringViews-method | The BStringViews class |
blosum50 | scoring matrix for codon substitution in protein alignments |
BString | The BString class |
BString-class | The BString class |
BStringViews | Constructor-like functions and generics for BStringViews objects |
BStringViews,BString-method | Constructor-like functions and generics for BStringViews objects |
BStringViews,BStringViews-method | Constructor-like functions and generics for BStringViews objects |
BStringViews,file-method | Constructor-like functions and generics for BStringViews objects |
BStringViews-class | The BStringViews class |
BStringViews-constructors | Constructor-like functions and generics for BStringViews objects |
class:AAString | The AAString class |
class:BString | The BString class |
class:BStringViews | The BStringViews class |
class:DNAString | The DNAString class |
class:RNAString | The RNAString class |
complement | Sequence reversing and complementing |
complement,BStringViews-method | Sequence reversing and complementing |
complement,DNAString-method | Sequence reversing and complementing |
countPattern | String searching functions |
countPattern,ANY,BString-method | String searching functions |
countPattern,ANY,BStringViews-method | String searching functions |
countPattern,ANY,character-method | String searching functions |
desc | The BStringViews class |
desc,BStringViews-method | The BStringViews class |
DNAString | The DNAString class |
DNAString-class | The DNAString class |
DNA_ALPHABET | The DNAString class |
first | The BStringViews class |
first,BStringViews-method | The BStringViews class |
GENETIC_CODE | The Standard Genetic Code |
initialize,AAString-method | The AAString class |
initialize,BString-method | The BString class |
initialize,BStringViews-method | Constructor-like functions and generics for BStringViews objects |
initialize,DNAString-method | The DNAString class |
initialize,RNAString-method | The RNAString class |
IUPAC_CODE_MAP | The IUPAC Extended Genetic Alphabet |
last | The BStringViews class |
last,BStringViews-method | The BStringViews class |
length,BString-method | The BString class |
length,BStringViews-method | The BStringViews class |
letter | The BString class |
letter,BString-method | The BString class |
matchDNAPattern | String searching functions |
matchPattern | String searching functions |
matchPattern,ANY,BString-method | String searching functions |
matchPattern,ANY,BStringViews-method | String searching functions |
matchPattern,ANY,character-method | String searching functions |
mismatch | String searching functions |
mismatch,ANY,BStringViews-method | String searching functions |
nchar,BString-method | The BString class |
nchar,BStringViews-method | The BStringViews class |
needwunsQS | quadratic-space, simple gap implementation of Needleman-Wunsch global alignment algorithm |
needwunsQS,BString,character-method | quadratic-space, simple gap implementation of Needleman-Wunsch global alignment algorithm |
needwunsQS,character,BString-method | quadratic-space, simple gap implementation of Needleman-Wunsch global alignment algorithm |
needwunsQS,character,character-method | quadratic-space, simple gap implementation of Needleman-Wunsch global alignment algorithm |
print.needwunsQS | quadratic-space, simple gap implementation of Needleman-Wunsch global alignment algorithm |
readFASTA | A function to read FASTA formatted files |
reverse | Sequence reversing and complementing |
reverse,BString-method | Sequence reversing and complementing |
reverse,BStringViews-method | Sequence reversing and complementing |
reverseComplement | Sequence reversing and complementing |
reverseComplement,BStringViews-method | Sequence reversing and complementing |
reverseComplement,DNAString-method | Sequence reversing and complementing |
RNAString | The RNAString class |
RNAString-class | The RNAString class |
RNA_ALPHABET | The RNAString class |
show,BString-method | The BString class |
show,BStringViews-method | The BStringViews class |
subBString | The BString class |
subBString,BString-method | The BString class |
subject | The BStringViews class |
subject,BStringViews-method | The BStringViews class |
toString,BString-method | The BString class |
toString,BStringViews-method | The BStringViews class |
views | Constructor-like functions and generics for BStringViews objects |
width | The BStringViews class |
width,BStringViews-method | The BStringViews class |
yeastSEQCHR1 | An annotation data file for CHR1 in the yeastSEQ package |
[,BString-method | The BString class |
[,BStringViews-method | The BStringViews class |
[<-,BString-method | The BString class |
[<-,BStringViews-method | The BStringViews class |
[[,BStringViews-method | The BStringViews class |
[[<-,BStringViews-method | The BStringViews class |