Bioinformatics Toolbox™

genpeptread - Read data from GenPept file

Syntax

GenPeptData = genpeptread('File')

Arguments

File GenPept formatted file (ASCII text file). Enter a file name, a path and file name, or a URL pointing to a file. File can also be a MATLAB^® character array that contains the text of a GenPept file.

Description

genpeptread reads data from a GenPept formatted file into a MATLAB structure.

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 in the GenPept formatted sequence from File and creates a structure GenPeptData, containing fields corresponding to the GenPept keywords. Each separate sequence listed in File is stored as a separate element of the structure. GenPeptDATA contains these fields:

Field
`LocusName`
`LocusSequenceLength`
`LocusMoleculeType`
`LocusGenBankDivision`
`LocusModificationDate`
`Definition`
`Accession`
`PID`
`Version`
`GI`
`DBSource`
`Keywords`
`Source`
`SourceDatabase`
`SourceOrganism`
`Reference.Number`
`Reference.Authors`
`Reference.Title`
`Reference.Journal`
`Reference.MedLine`
`Reference.PubMed`
`Reference.Remark`
`Comment`
`Features`
`Weight`
`Length`
`Sequence`

Examples

Retrieve sequence information for the protein coded by the gene HEXA, save to a file, and then read back into the MATLAB software.

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

genpeptread - Read data from GenPept file

Syntax

Arguments

Description

Examples

See Also