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spikodrome / administrative

An administrative area for orchestrating the project
Apache License 2.0
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spikeforest recordings repo #12

Open magland opened 4 years ago

magland commented 4 years ago

@yarikoptic and all

I made a repo containing the spikeforest recordings: https://github.com/flatironinstitute/spikeforest_recordings

I also have tools for online vis of these. And one of the next steps will be to make containerized spike sorting. I'll follow up on these topics in other gh issues.

yarikoptic commented 4 years ago

Great! I will look into it in greater detail when I come back from current trip. I might produce for myself a datalad'ified version (i.e. look into adding a git annex special remote to fetch using kachery those URLs like "sha1dir://fb52d510d2543634e247e0d2d1d4390be9ed9e20.synth_magland/datasets_noise20_K20_C4/006_synth/raw.mda" and placing them alongside the .json files. E.g. for ./recordings/SYNTH_MAGLAND/synth_magland_noise20_K20_C4/006_synth.json which fetches data from above url, have 006_synth.mda nearby. Or do you think it is a bad idea?

magland commented 4 years ago

Yes, I think that would be a good idea. Especially since data on kachery is not really archived in that it is not guaranteed to be there in, say, a month, a year, ten years.

magland commented 4 years ago

There is now a top-level file in the repo that contains a pointer to the entire spikeforest collection of recordings in a single json file.

It is here: https://github.com/flatironinstitute/spikeforest_recordings/blob/master/recordings/studysets

You can then copy that reference into the query parameter of a webapp like so: http://132.249.245.246:24348/app/spikeforest?path=sha1://d52cfae9e066334be3f21ffb0347a7b882d45818/studysets.json

which allows interactive browsing of these recordings. If you drill down you will find the timeseries view and other widgets such as autocorrelograms.