Retrieve sequence information from EMBL database
EMBLData = getembl(AccessionNumber)
EMBLData = getembl(...,
'ToFile', ToFileValue, ...)
EMBLSeq = getembl(...,
'SequenceOnly', SequenceOnlyValue, ...)
AccessionNumber | Unique identifier for a sequence record. Enter a unique combination of letters and numbers. |
ToFileValue | Character vector specifying a file name or a path and file name to which to save the data. If you specify only a file name, the file is stored in the current folder. |
SequenceOnlyValue | Controls the retrieving of only the sequence without the metadata.
Choices are true or false (default). |
EMBLData | MATLAB® structure with fields corresponding to EMBL data. |
EMBLSeq | MATLAB character vector representing the sequence. |
getembl retrieves information from the European
Molecular Biology Laboratory (EMBL) database for nucleotide sequences.
This database is maintained by the European Bioinformatics Institute
(EBI). For more details about the EMBL database, see
EMBLData = getembl(AccessionNumber)https://www.ebi.ac.uk/) and
returns 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.
| Field |
|---|
Identification |
Accession |
SequenceVersion |
DateCreated |
DateUpdated |
Description |
Keyword |
OrganismSpecies |
OrganismClassification |
Organelle |
Reference |
DatabaseCrossReference |
Comments |
Assembly |
Feature |
BaseCount |
Sequence |
EMBLData = getembl(...,
'PropertyName', PropertyValue,
...)getembl with optional properties
that use property name/property value pairs. You can specify one or
more properties in any order. Each PropertyName must
be enclosed in single quotation marks and is case insensitive. These
property name/property value pairs are as follows:
saves
the information to an EMBL-formatted file. EMBLData = getembl(...,
'ToFile', ToFileValue, ...)ToFileValue is
a character vector specifying a file name or a path and file name
to which to save the data. If you specify only a file name, the file
is stored in the current folder.
Tip
Read an EMBL-formatted file back into the MATLAB software
using the emblread function.
EMBLSeq = getembl(...,
'SequenceOnly', SequenceOnlyValue, ...)true or false (default).
Retrieve data for the rat liver apolipoprotein A-I.
emblout = getembl('X00558')
Retrieve data for the rat liver apolipoprotein A-I and save
it to the file rat_protein. If you specify a file
name without a path, the file is stored in the current folder.
emblout = getembl('X00558','ToFile','c:\project\rat_protein.txt')
Retrieve only the sequence for the rat liver apolipoprotein A-I.
Seq = getembl('X00558','SequenceOnly',true)
emblread | getgenbank | getgenpept | getpdb | seqviewer