Bioinformatics Toolbox™

emblread - Read data from EMBL file

Syntax

EMBLData = emblread(File)
EMBLSeq = emblread (File, 'SequenceOnly', SequenceOnlyValue)

Arguments

Return Values

Description

EMBLData = emblread(File) reads data from File, an EMBL-formatted file, and creates EMBLData, a MATLAB structure with fields corresponding to the EMBL two-character line type code. Each line type code is stored as a separate element in the structure.

EMBLData contains the following fields.

Note   Topology information was not included in EMBL flat files before release 87 of the database. When reading a file created before release 87, EMBLREAD returns an empty Identification.Topology field.

Note   The entry name is no longer displayed in the ID line of EMBL flat files in release 87. When reading a file created in release 87, EMBLREAD returns the accession number in the Identification.EntryName field.

EMBLSeq = emblread (File, 'SequenceOnly', SequenceOnlyValue) controls the reading of only the sequence without the metadata. Choices are true or false (default).

Examples

Retrieve sequence information from the Web, save to a file, and then read back into the MATLAB software.

1. Use the getembl function and ToFile property to retrieve sequence information from the Web and save to an EMBL-formatted file.

   getembl('X00558','ToFile','rat_protein.txt');
   

2. Read data from the EMBL-formatted file and create a MATLAB structure.

   EMBLData = emblread('rat_protein.txt')
   

See Also

Bioinformatics Toolbox™ functions: fastaread, genbankread, genpeptread, getembl, pdbread, seqtool

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