Analyze Imported Data

This example will guide you through the process of importing and analyzing data.

To import data and analyse it, we only need the Track class.

from trait2d.analysis import Track

We can now import data from a .csv file.

track = Track.from_file("track1.csv", unit_length='micrometres')

The track is now imported and can be used for analysis. The representation of the track instance holds some information about it.

track

Out:

<Track instance at 140668315412176>
------------------------
Track length:       1000
Track ID:           None
------------------------
MSD calculated:    False
MSD analysis done: False
ADC analysis done: False

To view the trajectory, we can use Track.plot_trajectory().

track.plot_trajectory()

from trait2d.analysis.models import ModelBrownian, ModelConfined, ModelHop
from trait2d.analysis import ModelDB

ModelDB().add_model(ModelBrownian)
ModelDB().add_model(ModelConfined)
ModelDB().add_model(ModelHop)

We can choose the range of data used for the fits with the keyword argument fractionFitPoints.

track.adc_analysis(fraction_fit_points = 0.15)
track.plot_adc_analysis_results()

Out:

0%|          | 0/997 [00:00<?, ?it/s]

It is a good idea to use ModelDB().cleanup() at the end of your notebooks to remove all models again. Otherwise they may carry over into other open notebooks.

ModelDB().cleanup()