fasta

func FASTAtoLinearDNASeqs ¶

func FASTAtoLinearDNASeqs(fastaFile wtype.File) (seqs []wtype.DNASequence, err error)

This will retrieve seq from FASTA file

func FASTAtoPlasmidDNASeqs ¶

func FASTAtoPlasmidDNASeqs(file wtype.File) (seqs []wtype.DNASequence, err error)

This will retrieve sequences from a FASTA file of type wtype.File and set all sequences to plasmids

func FastaContentstoDNASequences ¶

func FastaContentstoDNASequences(data []byte) (seqs []wtype.DNASequence, err error)

Convert the contents of a sequence file in Fasta format to an array of DNASequence. If the header does not contain the key words PLASMID, CIRCULAR or VECTOR the sequence will be assumed to be linear.

func FastaToDNASequences ¶

func FastaToDNASequences(sequenceFile wtype.File) (seqs []wtype.DNASequence, err error)

Convert a sequence file in Fasta format to an array of DNASequence. If the header does not contain the key words PLASMID, CIRCULAR or VECTOR the sequence will be assumed to be linear.

func Fastatocsv ¶

func Fastatocsv(inputfilename wtype.File, outputfileprefix string) (csvfile *os.File, err error)

func RetrieveSeqFromFASTA ¶

func RetrieveSeqFromFASTA(id string, fastaFile wtype.File) (seq wtype.DNASequence, err error)

This will retrieve seq from FASTA file using the sequence ID found in the file