genpeptread

Read data from GenPept file

Syntax

GenPeptData = genpeptread(File)
GenPeptData = genpeptread(File, 'TimeOut', TimeOutValue)

Arguments

File

Either of the following:

  • Character vector or string specifying a file name, a path and file name, or a URL pointing to a file. The referenced file is a GenPept-formatted file. If you specify only a file name, that file must be on the MATLAB® search path or in the MATLAB Current Folder.

  • MATLAB character array that contains the text of a GenPept-formatted file.

Tip

You can use the getgenpept function with the 'ToFile' property to retrieve sequence information from the GenPept database and create an GenPept-formatted file.

TimeOutValueConnection timeout in seconds, specified as a positive scalar. The default value is 5. For details, see here.
GenPeptData MATLAB structure or array of structures containing fields corresponding to GenPept keywords.

Description

Note

NCBI has changed the name of their protein search engine from GenPept to Entrez Protein. However, the function names in the Bioinformatics Toolbox™ software (getgenpept and genpeptread) are unchanged representing the still-used GenPept report format.

GenPeptData = genpeptread(File) reads a GenPept-formatted file, File, and creates GenPeptData, a structure or array of structures, containing fields corresponding to the GenPept keywords. When File contains multiple entries, each entry is stored as a separate element in GenPeptData. For a list of the GenPept keywords, see https://www.ncbi.nlm.nih.gov/Sitemap/samplerecord.html.

GenPeptData = genpeptread(File, 'TimeOut', TimeOutValue) sets the connection timeout (in seconds) to read data from a remote file or URL.

Examples

Retrieve sequence information for the protein coded by the HEXA gene, store the data in a file, and then read into the MATLAB software.

getgenpept('p06865', 'ToFile', 'TaySachs_Protein.txt')
genpeptread('TaySachs_Protein.txt')

See Also

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Introduced before R2006a

Bioinformatics Toolbox Documentation

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