search

NeurodataWithoutBorders / nwb-schema

Data format specification schema for the NWB neurophysiology data format
http://nwb-schema.readthedocs.io
Other
53 stars 16 forks source link

Provide SharpElectrodeSeries #479

Open apdavison opened 3 years ago

apdavison commented 3 years ago

The pynwb.icephys module has PatchClampSeries but no SharpElectrodeSeries. As far as I can see this could just be a copy of PatchClampSeries, since the latter links to IntracellularElectrode, which can represent either a sharp or patch electrode.

oruebel commented 3 years ago

CC @t-b

bendichter commented 3 years ago

@apdavison is this blocking you? If so, we could create an extension for this, which will be faster than changing the core schema.

apdavison commented 3 years ago

no, it's not blocking. We do have recordings with sharp electrodes in EBRAINS, but we haven't yet started systematically converting datasets to NWB, so it's not urgent.

t-b commented 3 years ago

@apdavison Do you have a link which explains what a sharp electrode is? I'm one of the developers of MIES which is an icephys acquisition program and I'm always curious to learn about icephys stuff I don't know.

apdavison commented 3 years ago

The Wikipedia article for electrophysiology gives a reasonable explanation.

A sharp electrode is like a patch electrode but with a smaller pore, and penetrates inside the cell rather than staying at the membrane surface.