ExpectedValKmerNUC_RNA: Expected Value for K-mer riboNucleotide...
In ftrCOOL: Feature Extraction from Biological Sequences

Description Usage Arguments Value Examples

This function is introduced by this package for the first time. It computes the expected value for each k-mer in a sequence. ExpectedValue(k-mer) = freq(k-mer) / ( freq(ribonucleotide1) * freq(ribonucleotide2) * ... * freq(ribonucleotidek) )

ExpectedValKmerNUC_RNA(
  seqs,
  k = 4,
  ORF = FALSE,
  reverseORF = TRUE,
  normalized = TRUE,
  label = c()
)

`seqs`	is a FASTA file containing ribonucleotide sequences. The sequences start with '>'. Also, seqs could be a string vector. Each element of the vector is a ribonucleotide sequence.
`k`	is an integer value. The default is four.
`ORF`	(Open Reading Frame) is a logical parameter. If it is set to true, ORF region of each sequence is considered instead of the original sequence (i.e., 3-frame).
`reverseORF`	is a logical parameter. It is enabled only if ORF is true. If reverseORF is true, ORF region will be searched in the sequence and also in the reverse complement of the sequence (i.e., 6-frame).
`normalized`	is a logical parameter. When it is FALSE, the return value of the function does not change. Otherwise, the return value is normalized using the length of the sequence.
`label`	is an optional parameter. It is a vector whose length is equivalent to the number of sequences. It shows the class of each entry (i.e., sequence).