Package Bio :: Package phenotype :: Module phen_micro
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Module phen_micro

source code

Classes to work with Phenotype Microarray data.

More information on the single plates can be found here: http://www.biolog.com/

Classes:
Functions:
Classes [hide private]
  PlateRecord
PlateRecord object for storing Phenotype Microarray plates data.
  WellRecord
WellRecord stores all time course signals of a phenotype Microarray well.
  JsonWriter
Class to write PM Json format files.
Functions [hide private]
 
JsonIterator(handle)
Iterate over PM json records as PlateRecord objects.
source code
 
CsvIterator(handle)
Iterate over PM csv records as PlateRecord objects.
source code
 
_toOPM(plate)
Transform a PlateRecord object into a dictionary (PRIVATE).
source code
Variables [hide private]
  _datafile = 'Data File'
  _plate = 'Plate Type'
  _strainType = 'Strain Type'
  _sample = 'Sample Number'
  _strainName = 'Strain Name'
  _strainNumber = 'Strain Number'
  _other = 'Other'
  _hour = 'Hour'
  _file = 'File'
  _position = 'Position'
  _setupTime = 'Setup Time'
  _platesPrefix = 'PM'
  _platesPrefixMammalian = 'PM-M'
  _csvData = 'csv_data'
  _measurements = 'measurements'
  __package__ = 'Bio.phenotype'
Function Details [hide private]

JsonIterator(handle)

source code 

Iterate over PM json records as PlateRecord objects.

Arguments:
  • handle - input file

CsvIterator(handle)

source code 

Iterate over PM csv records as PlateRecord objects.

Arguments:
  • handle - input file