Photosystem II efficiency (ϕₗₗ)¶

Basic protocol to measure the Photosystem II efficiency called phi2 or \(\Phi_{II}\). From the fluorescence trace several more values are produced, including \(F_{S}\), the steady state fluorescence, \(F_{M}\), the maximum fluorescence, and LEF, the linear electron flow, based on phi2 and the ambient light intensity.

Import

Example: Import phi2 into a script¶

import jii_multispeq_protocols.phi2 as _phi2

Protocol

 [{'detectors': [[1], [1], [1]],
'environmental': [['light_intensity']],
'nonpulsed_lights': [[2], [2], [2]],
'nonpulsed_lights_brightness': [['light_intensity'],
                                [4500],
                                ['light_intensity']],
'open_close_start': 1,
'pulse_distance': [10000, 10000, 10000],
'pulse_length': [[30], [30], [30]],
'pulsed_lights': [[3], [3], [3]],
'pulsed_lights_brightness': [[2000], [30], [30]],
'pulses': [20, 50, 20]}]

Analysis Function

_analyze(_data)[source]: Macro for data evaluation on PhotosynQ.org by: John Doe created: June 4, 2018 4:00 PM

Analysis Example (requires JII-MultispeQ package)¶

from jii_multispeq import measurement

## Take a measurement using the MultispeQ
data, crc32 = jii_multispeq.measure(port="<Selected Port>", protocol=_phi2, filename=None, notes="")

## The analyze function of JII-MultispeQ helps to provide the correct format
output = measurement.analyze( data, _phi2._analzye )

## View Analysis output (as table)
measurement.view( output )