biopython v1.71.0 Bio.Affy.CelFile
Reading information from Affymetrix CEL files version 3 and 4.
Link to this section Summary
Link to this section Functions
Link to this function
read()
Read Affymetrix CEL file and return Record object.
CEL files version 3 and 4 are supported, and the parser attempts version detection.
Example Usage:
>>> from Bio.Affy import CelFile
>>> with open("Affy/affy_v4_example.CEL", "rb") as handle:
... c = CelFile.read(handle)
...
>>> c.version == 4
True
Link to this function
read_v3()
Read version 3 Affymetrix CEL file, and return corresponding Record object.
Example Usage:
>>> from Bio.Affy import CelFile
>>> with open("Affy/affy_v3_example.CEL", "r") as handle:
... c = CelFile.read_v3(handle)
...
>>> c.version == 3
True
Link to this function
read_v4()
Read verion 4 Affymetrix CEL file, returns corresponding Record object.
Most importantly record.intensities correspond to intensities from the CEL file.
record.mask and record.outliers are not set.
Example Usage:
>>> from Bio.Affy import CelFile
>>> with open("Affy/affy_v4_example.CEL", "rb") as handle:
... c = CelFile.read_v4(handle)
...
>>> c.version == 4
True
>>> print("%i by %i array" % c.intensities.shape)
5 by 5 array