RecordingExtractor Widgets Gallery

Here is a gallery of all the available widgets using RecordingExtractor objects.

import matplotlib.pyplot as plt

import spikeinterface.extractors as se
import spikeinterface.widgets as sw

Traceback (most recent call last):
  File "/home/docs/checkouts/readthedocs.org/user_builds/spikeinterface/checkouts/0.98.0/examples/modules_gallery/widgets/plot_1_rec_gallery.py", line 9, in <module>
    import spikeinterface.extractors as se
  File "/home/docs/checkouts/readthedocs.org/user_builds/spikeinterface/conda/0.98.0/lib/python3.9/site-packages/spikeinterface/extractors/__init__.py", line 1, in <module>
    from .extractorlist import *
  File "/home/docs/checkouts/readthedocs.org/user_builds/spikeinterface/conda/0.98.0/lib/python3.9/site-packages/spikeinterface/extractors/extractorlist.py", line 15, in <module>
    from .neoextractors import *
  File "/home/docs/checkouts/readthedocs.org/user_builds/spikeinterface/conda/0.98.0/lib/python3.9/site-packages/spikeinterface/extractors/neoextractors/__init__.py", line 1, in <module>
    from .alphaomega import AlphaOmegaRecordingExtractor, AlphaOmegaEventExtractor, read_alphaomega, read_alphaomega_event
  File "/home/docs/checkouts/readthedocs.org/user_builds/spikeinterface/conda/0.98.0/lib/python3.9/site-packages/spikeinterface/extractors/neoextractors/alphaomega.py", line 3, in <module>
    from .neobaseextractor import NeoBaseRecordingExtractor, NeoBaseEventExtractor
  File "/home/docs/checkouts/readthedocs.org/user_builds/spikeinterface/conda/0.98.0/lib/python3.9/site-packages/spikeinterface/extractors/neoextractors/neobaseextractor.py", line 332, in <module>
    class NeoBaseSortingExtractor(_NeoBaseExtractor, BaseSorting):
  File "/home/docs/checkouts/readthedocs.org/user_builds/spikeinterface/conda/0.98.0/lib/python3.9/site-packages/spikeinterface/extractors/neoextractors/neobaseextractor.py", line 480, in NeoBaseSortingExtractor
    def _infer_t_start_from_signal_stream(self, segment_index: int, stream_id: Optional[str] = None) -> float | None:
TypeError: unsupported operand type(s) for |: 'type' and 'NoneType'

First, let’s create a toy example with the extractors module:

recording, sorting = se.toy_example(duration=10, num_channels=4, seed=0, num_segments=1)

plot_timeseries()

w_ts = sw.plot_timeseries(recording)

We can select time range

w_ts1 = sw.plot_timeseries(recording, time_range=(5, 8))

We can color with groups

recording2 = recording.clone()
recording2.set_channel_groups(channel_ids=recording.get_channel_ids(), groups=[0, 0, 1, 1])
w_ts2 = sw.plot_timeseries(recording2, time_range=(5, 8), color_groups=True)

Note: each function returns a widget object, which allows to access the figure and axis.

w_ts.figure.suptitle("Recording by group")
w_ts.ax.set_ylabel("Channel_ids")

We can also use the ‘map’ mode useful for high channel count

w_ts = sw.plot_timeseries(recording, mode='map', time_range=(5, 8),
        show_channel_ids=True, order_channel_by_depth=True)

plot_electrode_geometry()

w_el = sw.plot_probe_map(recording)


plt.show()