Bioinformatics Toolbox

emblread

Read data from EMBL file

Syntax

EMBLData = emblread('File',
                    'PropertyName', PropertyValue)

emblread(..., 'SequenceOnly', SequenceOnlyValue)

Arguments

`File`	EMBL formatted file (ASCII text file). Enter a filename, a path and filename, or a URL pointing to a file. `File` can also be a MATLAB character array that contains the text for a filename.
`SequenceOnly`	Property to control reading only the sequence. Enter `true`.
`EMBLData`	MATLAB structure with fields corresponding to EMBL data.
`EMBLSeq`	MATLAB character string without metadata for the sequence.

Description

EMBLData = emblread('File', 'PropertyName', PropertyValue...) reads data from an EMBL formatted file (File) and creates a MATLAB structure (EMBLData) 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 for the 137.0 version contains the following fields:

Comments
Identification
Accession
SequenceVersion
Datecreated
Dateupdated
Description
Keyword
OrganismSpecies
OorganismClassification
Organelle
Reference.Number
Reference.Comment
Reference.Position
Reference{#}.MedLine
Referemce{#}.PubMed
Reference.Authors
Reference.Title
Reference.Location
DatabaseCrossReference
Feature
Basecount
Sequence

Seq = emblread('File', 'SequenceOnly', SequenceOnlyValue),when SequenceOnly is true, reads only the sequence information .

Examples

Get sequence information from the web, save to a file, and then read back into MATLAB.

getembl('X00558','ToFile','rat_protein.txt');
EMBLData = emblread('rat_protein.txt')

emblread

Syntax

Arguments

Description

Examples

See Also