Sessions

Extracellular

Equipment	File format	Sampling rate	nSamples	nChannels	Spike groups	Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch)	dat	20000		64	4	0.195

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Implanted probes

HAM34 : Silicon probe NeuroNexus A4x16-Poly2-5mm-23s-200-177 (64 ch, 4 shanks, poly 2 ) | Region: CA1 | Coordinates: , ,

Spike groups

Spike groups are typically defined by the group of channels within shanks. Channels are listed and comma-separated and labels can further be assigned to each group. Channels are 0-indexed.

Group	Channels	Label
1	26, 23, 21, 28, 22, 27, 19, 30, 20, 29, 17, 32, 18, 31, 24, 25
2	11, 10, 7, 14, 6, 15, 5, 16, 3, 12, 2, 8, 1, 4, 9, 13
3	56, 53, 52, 57, 49, 60, 50, 59, 54, 61, 58, 64, 62, 63, 51, 55
4	41, 40, 38, 43, 37, 44, 36, 45, 35, 46, 34, 47, 33, 48, 39, 42

This section is dedicated to extra inputs besides the primary recording channels. For extracellular recordings this includes any extra analog and digital channels. Further it can be inputs saved with an Arduino or Raspberry pi or an entirely different hardware solution.

Equipment	Input type	Channel	Tag	Description
Intan Technologies, RHD2000 USB interface board (256ch)	adc	3	opto	Analog reading of the opto stimulation
Intan Technologies, RHD2000 USB interface board (256ch)	dig	1	optiTrack_sync	optiTrack TTL sync

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Equipment	File names	Epoch	Type	Framerate	Notes
OptiTrack, Flex 13	ham34_120.csv	1	Head position	100
OptiTrack, Flex 13	ham34_121.csv	2	Head position	100
OptiTrack, Flex 13	ham34_122.csv	3	Head position	100

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Brain regions are defined according to the Allen Institute Atlas. A brain region can be assigned to a list of channels or spike groups.

Brain region	Channels	Spike groups
CA1 – Field CA1 (View in Atlas)	1:64

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Channel tags

Examples and reserved tags: Bad, Good, Theta, Gamma, Delta, Ripple, RippleNoise.

Tag	Channels	Spike groups
Theta	32	4
Ripple	32	4

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Analysis tags

Tag	Value	Description
prebehaviortime	1
optiTrackExtraPulses	0
useOptitrackTime	0
optiTrack_length_unit	1
opto_pulse_amplitude	0.5
optiTrack_offset	-5, 60, 0
reward_points_linearized	118,192
sessions	1,2,3	Control, Stim, PostStim
timefile	1	time
optiTrack_scaling	0.5

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Method	Format	Relative path	Channels	Spike sorter	Notes	Sorting completed	Units count	Sorting ID
KiloSort	Phy	Kilosort_2019-03-21_190735		Viktor Varga		Yes	20	46539

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#	Spike count	Firing rate (Hz)	Spike group	Brain region	Cell type	Deep/Superficial	Refractory violation (‰)	Peak voltage (µV)	Trough-to-Peak (ms)	Isolation distance
1	10921	1.3826465713929	2	CA1	Pyramidal Cell	Superficial	2.8385678967128	208.35302108924	0.7
2	29468	3.7260338406769	3	CA1	Pyramidal Cell	Superficial	4.4115650875526	175.80828639793	0.76
3	172513	21.812267903349	2	CA1	Narrow Interneuron	Superficial	2.2143258768904	409.91337720096	0.2
4	180780	22.85765670556	3	CA1	Narrow Interneuron	Superficial	1.6318176789468	155.0304679556	0.25
5	3319	0.42084535951675	4	CA1	Pyramidal Cell	Superficial	0.30129557095511	173.58965688426	0.69
6	2128	0.27274827299267	3	CA1	Wide Interneuron	Superficial	3.2894736842105	161.85173189478	0.7
7	4124	0.52454812068234	3	CA1	Pyramidal Cell	Superficial	1.2124151309408	154.38655388835	0.78
8	8170	1.0367927743183	4	CA1	Wide Interneuron	Superficial	5.140758873929	133.93555553285	0.72
9	6510	0.82417501552687	4	CA1	Pyramidal Cell	Superficial	0.46082949308756	185.81890212618	0.68
10	11654	1.4741930856334	2	CA1	Wide Interneuron	Superficial	2.3168010983353	118.3306177972	0.77
11	13132	1.6640049915081	4	CA1	Pyramidal Cell	Superficial	4.949741090466	136.66032410621	0.78
12	19606	2.479194730845	3	CA1	Pyramidal Cell	Superficial	3.8253595838009	116.5336587948	0.7
13	29948	3.7886140105572	3	CA1	Wide Interneuron	Superficial	0.96834513156137	122.82364778872	0.74
14	36830	4.6574123264101	3	CA1	Pyramidal Cell	Superficial	9.6388813467282	113.45297648906	0.7
15	38720	4.963711799073	1	CA1	Wide Interneuron	Superficial	0.051652892561983	121.70781180508	0.68
16	39255	4.9651023063409	3	CA1	Pyramidal Cell	Superficial	5.8846006878105	153.334896884	0.65
17	208185	26.3225269636	4	CA1	Narrow Interneuron	Superficial	3.1606503830727	274.3216815269	0.22
18	10598	1.3403879713649	4	CA1	Pyramidal Cell	Superficial	0.66050198150594	105.27036340329	0.65
19	2680	0.34237366306438	2	CA1	Wide Interneuron	Superficial	0.37313432835821	193.59631061554	0.75
20	309087	39.080254868347	2	CA1	Narrow Interneuron	Superficial	1.4170767453824	235.01411296648	0.27