Superclasses:
Contain Gene Transfer Format (GTF) annotations
The GTFAnnotation class contains annotations
for one or more reference sequences, conforming to the GTF file format.
You construct a GTFAnnotation object from
a GTF-formatted file. Each element in the object represents an annotation.
Use the object properties and methods to filter annotations by feature,
reference sequence, or reference sequence position. Use object methods
to extract data for a subset of annotations into an array of structures.
Annotobj =
GTFAnnotation(File)Annotobj,
a GTFAnnotation object, from File,
a GTF-formatted file.
|
Character vector or string specifying a GTF-formatted file. |
|
Cell array of character vectors specifying the names of the
available data fields for each annotation in the |
|
Integer specifying number of annotations in the |
| getData | Create structure containing subset of data from GTFAnnotation object |
| getExons | Return table of exons from GTFAnnotation object |
| getFeatureNames | Retrieve unique feature names from GTFAnnotation object |
| getGeneNames | Retrieve unique gene names from GTFAnnotation object |
| getGenes | Return table of unique genes in GTFAnnotation object |
| getIndex | Return index array of annotations from GTFAnnotation object |
| getRange | Retrieve range of annotations from GTFAnnotation object |
| getReferenceNames | Retrieve reference names from GTFAnnotation object |
| getSegments | Return table of non-overlapping segments from GTFAnnotation object |
| getSubset | Create object containing subset of elements from GTFAnnotation object |
| getTranscriptNames | Retrieve unique transcript names from GTFAnnotation object |
| getTranscripts | Return table of unique transcripts in GTFAnnotation object |
Value. To learn how value classes affect copy operations, see Copying Objects.
GTFAnnotation objects support dot . indexing
to extract properties.
Construct a GTFAnnotation object
from a GTF-formatted file that is provided with Bioinformatics Toolbox™:
GTFAnnotObj = GTFAnnotation('hum37_2_1M.gtf')GTFAnnotObj =
GTFAnnotation with properties:
FieldNames: {1x11 cell}
NumEntries: 308