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scratcharchive / spikeforest-docs

Miscellaneous documentation for projects related to spikeforest
Apache License 2.0
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move mearec generator script to spikeforest2 and fix bug reported by James #64

Open magland opened 5 years ago

magland commented 5 years ago

https://github.com/magland/spikeforest/blob/master/gen_synth_datasets_mearec/gen_synth_datasets.py

The bug is in the geometry.

magland commented 5 years ago

But the same info is captured in /info tag under hdf5 files {'{"electrodes": {"dim": 2, "electrode_name": "tetrode", "pitch": 16, "plane": "yz", "shape": "square", "size": 7.0, "sortlist": null, "type": "mea"}, "params": {"cell_models_folder": "/home/alessiob/Documents/Codes/MEArec/cell_models/bbp", "cut_out": [2, 5], "delay": 10, "det_thresh": 30, "dt": 0.03125, "n": 100, "ncontacts": 1, "offset": 0, "overhang": 30, "probe": "tetrode_mea", "rot": "physrot", "seed": 1687, "sim_time": 1, "target_spikes": [3, 50], "templates_folder": "/home/alessiob/Documents/Codes/MEArec/data/templates", "weights": [0.25, 1.75], "xlim": [10, 80], "ylim": null, "zlim": null}}'}