featureCKSAAP {BioSeqClass} | R Documentation |
Protein sequences are coded based on the frequency of k-spaced aminoacids/base pairs.
featureCKSAAP(seq,g,class=elements("aminoacid"))
seq |
a string vector for the protein, DNA, or RNA sequences. |
g |
an integer indicating the distance between two aminoacids/bases (g>=0). |
class |
a list for the class of biological properties. It can
be produced by |
featureCKSAAP
returns a matrix with (g+1)*M\^2 columns. Each
row represented features of one sequence coding by a (g+1)*M\^2 dimension
numeric vector. Each column is the number of k-spaced aminoacids/base
pair (0<=k<=g).
Hong Li
if(interactive()){ file = file.path(path.package("BioSeqClass"), "example", "acetylation_K.pos40.pep") seq = as.matrix(read.csv(file,header=F,sep="\t",row.names=1))[,1] CKSAAP0 = featureCKSAAP(seq,0,elements("aminoacid")) CKSAAP2 = featureCKSAAP(seq,2,elements("aminoacid")) }