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_150.csv	1	Head position	100
OptiTrack, Flex 13	ham34_151.csv	2	Head position	100
OptiTrack, Flex 13	ham34_152.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	34	46839

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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	1842	0.36109272185764	4	CA1	Pyramidal Cell	Superficial	1.628664495114	168.08496365956	0.66
2	1989	0.39150042152726	2	CA1	Wide Interneuron	Deep	0	218.4015847464	0.77
3	18938	3.6834855085684	3	CA1	Pyramidal Cell	Deep	5.2275847502376	115.93361896742	0.75
4	3499	0.68082601220796	2	CA1	Pyramidal Cell	Deep	1.7147756501858	145.13836953959	0.68
5	3620	0.70635902246624	4	CA1	Pyramidal Cell	Deep	0	142.0365770624	0.77
6	4196	0.81855973789858	4	CA1	Wide Interneuron	Deep	2.8598665395615	111.99300039962	0.69
7	4207	0.8182790030697	2	CA1	Wide Interneuron	Deep	1.4261944378417	158.11555952888	0.77
8	4311	0.84398501414649	2	CA1	Pyramidal Cell	Deep	1.3917884481559	182.18112671932	0.73
9	4607	0.89779974460745	3	CA1	Pyramidal Cell	Deep	0	148.60883222386	0.74
10	4513	0.87824511252849	4	CA1	Pyramidal Cell	Deep	2.4374030578329	134.13859853669	0.79
11	4839	0.94345345708087	2	CA1	Wide Interneuron	Deep	0	262.64788591567	0.76
12	5348	1.0425296744726	3	CA1	Wide Interneuron	Deep	0.74794315632012	130.36925893022	0.67
13	5355	1.0461545001601	2	CA1	Wide Interneuron	Deep	0.18674136321195	227.96867055763	0.73
14	5367	1.0446792090784	2	CA1	Wide Interneuron	Deep	2.4222098006335	133.75693506113	0.75
15	4131	0.80768734565578	4	CA1	Wide Interneuron	Deep	1.6945049624788	151.30915499543	0.77
16	5688	1.1074783605582	1	CA1	Pyramidal Cell	Deep	0.17580872011252	111.09394118791	0.78
17	6003	1.1678570829302	2	CA1	Pyramidal Cell	Deep	0.33316674995835	253.67708919688	0.78
18	5883	1.1444679632427	1	CA1	Wide Interneuron	Deep	0.16998130205677	111.04298422507	0.76
19	6901	1.3423379878675	2	CA1	Pyramidal Cell	Deep	0.43471960585422	110.76659549046	0.61
20	7009	1.3659933661523	2	CA1	Pyramidal Cell	Deep	3.7095163361392	112.71418775022	0.73
21	8084	1.5732283704841	2	CA1	Wide Interneuron	Deep	0.24740227610094	195.04570192386	0.76
22	8319	1.7468913224764	3	CA1	Pyramidal Cell	Deep	0.360620266859	143.87446097472	0.76
23	10701	2.0822190084024	2	CA1	Pyramidal Cell	Deep	0.84104289318755	141.57923662453	0.72
24	12177	2.3693916856826	4	CA1	Pyramidal Cell	Deep	0.65697626673236	147.14584144034	0.74
25	111333	21.652539185314	3	CA1	Narrow Interneuron	Deep	2.9910269192423	136.06362160691	0.28
26	12957	2.522584131914	1	CA1	Wide Interneuron	Deep	0.926140310257	158.85340793296	0.78
27	17743	3.4538168018912	3	CA1	Pyramidal Cell	Superficial	0.056360254748351	139.39875605164	0.77
28	29178	5.6758896599113	3	CA1	Pyramidal Cell	Deep	2.6732469668929	141.71076366062	0.68
29	95705	18.613280369875	2	CA1	Narrow Interneuron	Deep	3.8764954809049	640.67564875569	0.21
30	51296	9.9762694081285	2	CA1	Narrow Interneuron	Deep	0.21444167186525	162.29097174342	0.24
31	71858	13.975265386707	2	CA1	Narrow Interneuron	Deep	0.32007570486237	148.40007419131	0.24
32	129194	25.127219262441	1	CA1	Narrow Interneuron	Deep	5.8903664256854	243.95592054563	0.22
33	137033	26.650654452949	4	CA1	Narrow Interneuron	Deep	4.5171601001219	240.7035743978	0.25
34	158038	30.735832214306	2	CA1	Narrow Interneuron	Deep	1.2781736038168	337.02611528451	0.23