AASequence-class {pairseqsim} | R Documentation |
Object representation of a protein Sequence
Objects can be created by calls of the form new("AASequence", sequence, info, alphabet)
.
or by call to AASequence("PROTINSEQUENCEHERE",info="my prot seq")
.Data
:"character"
the sequenceinfo
:"character"
the info
Class "character"
, directly.
signature(x = "AASequence")
: returns the
amino acid frequencies signature(.Object = "AASequence")
: internal signature(object = "AASequence")
: read FASTA
file formatsignature(obj1 = "AASequenceList", obj2 = "AASequence")
: see: salign-methods
signature(obj1 = "AASequence", obj2 = "AASequenceList")
: see: salign-methods
signature(obj1 = "AASequence", obj2 = "AASequence")
: see: salign-methods
signature(object = "AASequence", sub =
"Submatrix")
: Computes Smith-Waterman score of the alignment of
the sequence with itself.signature(object = "AASequence")
: signature(obj1 = "AASequence", obj2 =
"AASequence")
: internal, see: testalign-methods
Witold E. Wolski
salign-methods
,readFasta-methods
seq1<-new("AASequence","MEDQVGFGFRPNDEEL",info="seq1") seq2<-AASequence("seq2","VAISEVNICSY")