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_135.csv	1	Head position	100
OptiTrack, Flex 13	ham34_136.csv	2	Head position	100
OptiTrack, Flex 13	ham34_137.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, 62, 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_Final		Viktor Varga		Yes	32	46719

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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	26801	3.3364437248314	3	CA1	Pyramidal Cell	Deep	4.0670124249095	125.11115392143	0.67
2	234263	29.159399885677	2	CA1	Narrow Interneuron	Deep	1.3104929075441	312.36595607836	0.26
3	184665	22.985712412759	1	CA1	Narrow Interneuron	Deep	13.451384940297	290.28564667688	0.23
4	2087	0.25999855138325	2	CA1	Wide Interneuron	Deep	0	194.40380454369	0.75
5	4314	0.53806495229744	2	CA1	Pyramidal Cell	Deep	0	336.99311905028	0.79
6	5090	0.63433911684442	4	CA1	Pyramidal Cell	Deep	3.5363457760314	167.46933621877	0.76
7	6356	0.79159362935759	2	CA1	Pyramidal Cell	Deep	6.6079295154185	295.77102592827	0.78
8	7417	0.92451478850652	3	CA1	Pyramidal Cell	Deep	0.67412700552784	112.8550596528	0.68
9	6492	0.81073697489608	4	CA1	Pyramidal Cell	Deep	12.322858903266	156.40927600264	0.75
10	7648	0.95960401478596	4	CA1	Pyramidal Cell	Deep	2.7458158995816	158.39002183637	0.72
11	6986	0.870061398985	2	CA1	Pyramidal Cell	Deep	0	411.22180020859	0.77
12	6568	0.8175609910084	2	CA1	Pyramidal Cell	Deep	4.1108404384896	126.55213222247	0.75
13	7202	0.89651294183402	3	CA1	Pyramidal Cell	Deep	0.4165509580672	153.45411797941	0.7
14	7827	0.97446564481654	3	CA1	Wide Interneuron	Deep	0.25552574421873	160.96048428714	0.76
15	9378	1.1675772463995	4	CA1	Pyramidal Cell	Deep	3.7321390488377	106.11196300076	0.72
16	9976	1.2441799029513	3	CA1	Pyramidal Cell	Deep	0.20048115477145	209.74187096196	0.69
17	9342	1.163116463865	2	CA1	Pyramidal Cell	Deep	2.5690430314708	120.00776894967	0.76
18	11145	1.3888269192116	2	CA1	Pyramidal Cell	Deep	1.3458950201884	136.55479543359	0.8
19	11355	1.4134042680129	3	CA1	Pyramidal Cell	Deep	2.3778071334214	117.72027927965	0.68
20	12440	1.5486695036698	3	CA1	Pyramidal Cell	Deep	3.1350482315113	78.89462158244	0.62
21	13340	1.6606129502901	3	CA1	Pyramidal Cell	Deep	1.8740629685157	122.73375174871	0.65
22	13248	1.653384387234	3	CA1	Wide Interneuron	Deep	9.5863526570048	155.3836526362	0.76
23	13685	1.704332497897	2	CA1	Pyramidal Cell	Deep	2.4844720496894	169.04650704901	0.78
24	15392	1.9265486191273	4	CA1	Pyramidal Cell	Deep	30.080561330561	251.88191749275	0.76
25	16678	2.0763827485287	3	CA1	Pyramidal Cell	Deep	3.7774313466843	90.211695294979	0.74
26	19801	2.4710537844493	3	CA1	Pyramidal Cell	Deep	4.6462299883844	150.34634057348	0.71
27	29704	3.6982651178617	4	CA1	Pyramidal Cell	Deep	5.7904659305144	101.65058649579	0.79
28	30447	3.7898692216296	2	CA1	Pyramidal Cell	Deep	2.0691693762932	137.92268922774	0.74
29	125647	15.639747605664	2	CA1	Narrow Interneuron	Deep	3.7883912867	386.94705169319	0.3
30	132513	16.494339819286	3	CA1	Narrow Interneuron	Deep	1.7885037694415	149.72975178198	0.27
31	174932	21.774232777318	4	CA1	Narrow Interneuron	Superficial	8.2089040312807	244.16776488333	0.25
32	3996	0.49747283860236	2	CA1	Narrow Interneuron	Deep	0	368.03164002904	0.28