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_132.csv	1	Head position	100
OptiTrack, Flex 13	ham34_133.csv	2	Head position	100
OptiTrack, Flex 13	ham34_134.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	35	46659

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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	29104	4.1049627001853	3	CA1	Pyramidal Cell	Superficial	1.8210555250137	142.71021990287	0.7
2	28092	3.9629964866496	3	CA1	Pyramidal Cell	Deep	6.7990887085291	87.921857676616	0.71
3	166482	23.475391872034	4	CA1	Narrow Interneuron	Superficial	5.556156221093	281.55125034277	0.23
4	170893	24.09786412333	2	CA1	Narrow Interneuron	Deep	1.6911166636433	333.51677864931	0.26
5	1330	0.20600000413549	4	CA1	Pyramidal Cell	Deep	5.2631578947368	176.75061714319	0.78
6	4027	0.56981475190822	4	CA1	Pyramidal Cell	Deep	9.9329525701515	299.15843792722	0.76
7	4526	0.64328672842271	4	CA1	Pyramidal Cell	Deep	2.8722934158197	210.59465780141	0.63
8	5286	0.75494692684543	3	CA1	Pyramidal Cell	Deep	2.6485054861899	162.78570786562	0.68
9	5213	0.75803168965075	2	CA1	Pyramidal Cell	Deep	0.38365624400537	358.94538470427	0.76
10	4824	0.7955456108323	4	CA1	Wide Interneuron	Superficial	0.62189054726368	351.76950654734	0.69
11	5252	0.74141038064739	3	CA1	Wide Interneuron	Deep	2.8560548362529	102.14689604311	0.65
12	4985	0.70498871226097	2	CA1	Pyramidal Cell	Deep	0.60180541624875	280.20692835074	0.75
13	5808	0.81960412344697	3	CA1	Pyramidal Cell	Deep	2.7548209366391	117.27798514324	0.73
14	6050	0.85520523066701	3	CA1	Wide Interneuron	Deep	1.1570247933884	163.52215136666	0.71
15	6824	0.97767699375958	2	CA1	Pyramidal Cell	Deep	6.0082063305979	260.21397232876	0.77
16	6219	0.87836833033451	2	CA1	Pyramidal Cell	Deep	0.9647853352629	118.84668107018	0.74
17	7303	1.0299783062847	3	CA1	Pyramidal Cell	Deep	1.780090373819	209.42937367886	0.72
18	7782	1.1672092057139	3	CA1	Pyramidal Cell	Deep	0.38550501156515	131.58417802551	0.72
19	8548	1.2064401008947	3	CA1	Pyramidal Cell	Deep	1.1698642957417	155.49519593702	0.74
20	9554	1.3473093812825	4	CA1	Wide Interneuron	Deep	4.0820598702114	128.70531719884	0.76
21	10459	1.4752830597988	2	CA1	Wide Interneuron	Deep	2.7727316187016	118.62276528572	0.7
22	11647	1.6423434177595	3	CA1	Pyramidal Cell	Deep	4.5505280329699	100.6546265016	0.68
23	11872	2.4624981107867	2	CA1	Pyramidal Cell	Deep	0.084231805929919	314.45369130092	0.74
24	12038	1.6975044886112	3	CA1	Pyramidal Cell	Deep	1.9106163814587	117.32614455681	0.7
25	14855	2.0949463533669	2	CA1	Pyramidal Cell	Deep	4.7795355099293	119.76462241145	0.78
26	18136	2.5628423651494	2	CA1	Pyramidal Cell	Deep	3.0877812086458	182.81628095215	0.72
27	18685	2.6978113696643	4	CA1	Pyramidal Cell	Deep	9.3658014450094	100.7654772414	0.77
28	18544	2.61751283208	3	CA1	Pyramidal Cell	Deep	0.86281276962899	123.41725415037	0.74
29	32695	4.6120435246849	3	CA1	Narrow Interneuron	Deep	2.2633430188102	131.62468030595	0.29
30	34589	5.7302477544823	2	CA1	Narrow Interneuron	Deep	2.6598051403625	294.97850187793	0.32
31	51001	7.6936049618434	1	CA1	Narrow Interneuron	Deep	10.019411384091	232.45013352283	0.23
32	57558	8.1219754829313	2	CA1	Narrow Interneuron	Deep	0.90343653358352	190.65129744904	0.3
33	86845	12.287314728089	2	CA1	Narrow Interneuron	Deep	3.8459324083137	547.20621442679	0.2
34	86244	12.166008804219	3	CA1	Narrow Interneuron	Deep	1.7972264737257	146.97077786366	0.28
35	143394	28.111097234679	1	CA1	Narrow Interneuron	Deep	13.152572632049	326.66849804168	0.23