nonStandardSeq: nonStandard sequence (nonStandardSeq)
In ftrCOOL: Feature Extraction from Biological Sequences

Description Usage Arguments Value Examples

This function returns sequences which contain at least one non-standard alphabet.

1	nonStandardSeq(file, legacy.mode = TRUE, seqonly = FALSE, alphabet = "aa")

`file`	The address of fasta file which contains all the sequences.
`legacy.mode`	It comments all lines starting with ";"
`seqonly`	If it is set to true, the function returns sequences with no description.
`alphabet`	It is a vector which contains the amino acid, RNA, or DNA alphabets.

This function returns a string vector. Each element of the vector is a sequence which contains at least one non-standard alphabet.

filePrs<-system.file("extdata/proteins.fasta",package="ftrCOOL")
nonStandardPrSeq<-nonStandardSeq(file = filePrs,alphabet="aa")

fileLNC<-system.file("extdata/Athaliana_LNCRNA.fa",package="ftrCOOL")
nonStandardNUCSeq<-nonStandardSeq(file = filePrs, alphabet="dna")