skbio.sequence.Sequence.write¶

Sequence.write(file, format='fasta', **kwargs)[source]¶

Write an instance of Sequence to a file.

This is a convenience method for skbio.io.registry.write(). For more information about the I/O system in scikit-bio, please see skbio.io.

Supported file formats include:

• 'embl' (skbio.io.format.embl)
• 'fasta' (skbio.io.format.fasta)
• 'fastq' (skbio.io.format.fastq)
• 'genbank' (skbio.io.format.genbank)
• 'gff3' (skbio.io.format.gff3)

Parameters:

file (openable (filepath, URL, filehandle, etc.)) – The location to write the given format into. Something that is understood by skbio.io.util.open(). Filehandles are not automatically closed, it is the responsibility of the caller. format (str) – The format must be a registered format name with a writer for Sequence. Default is ‘fasta’. kwargs (dict, optional) – Keyword arguments passed to skbio.io.registry.write() and the file format writer.

See also

read(), skbio.io.registry.write(), skbio.io.util.open(), skbio.io.format.embl(), skbio.io.format.fasta(), skbio.io.format.fastq(), skbio.io.format.genbank(), skbio.io.format.gff3()