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_153.csv	1	Head position	100
OptiTrack, Flex 13	ham34_154.csv	2	Head position	100
OptiTrack, Flex 13	ham34_155.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, 58, 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	31	46869

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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	1892	0.25533353736174	3	CA1	Wide Interneuron	Deep	1.5856236786469	165.08866098097	0.73
2	2704	0.36003841492715	2	CA1	Wide Interneuron	Superficial	0.3698224852071	243.74874725254	0.7
3	4472	0.61273392354097	2	CA1	Pyramidal Cell	Superficial	0	318.75313747313	0.74
4	5079	0.67213090521555	4	CA1	Pyramidal Cell	Superficial	2.5595589683008	173.06523642715	0.68
5	5433	0.71787634655907	2	CA1	Wide Interneuron	Superficial	2.0246640898215	162.73966295272	0.69
6	7470	0.98730294706956	4	CA1	Pyramidal Cell	Superficial	6.1579651941098	146.9626742687	0.7
7	6655	0.87936069169574	2	CA1	Pyramidal Cell	Superficial	0.75131480090158	210.12178820239	0.78
8	5830	0.77035510754157	2	CA1	Wide Interneuron	Superficial	0.17152658662093	247.36811524373	0.75
9	7764	1.0258522767568	2	CA1	Wide Interneuron	Superficial	0.12879958784132	249.8188349785	0.72
10	7918	1.0461018941162	4	CA1	Wide Interneuron	Superficial	0.50517807527153	167.85716563208	0.74
11	8587	1.1345278822812	1	CA1	Wide Interneuron	Superficial	2.7949225573541	116.62685618865	0.8
12	8497	1.122697720668	4	CA1	Wide Interneuron	Deep	7.1790043544781	106.35224090643	0.62
13	8793	1.1618985133645	2	CA1	Pyramidal Cell	Superficial	0.22745365631753	244.36945676219	0.75
14	9298	1.2294067997818	2	CA1	Pyramidal Cell	Superficial	1.29060012906	156.67432047081	0.74
15	10389	1.3737941201109	4	CA1	Pyramidal Cell	Deep	0.19251131003946	132.45134614365	0.79
16	11599	1.5328851676127	4	CA1	Pyramidal Cell	Superficial	4.9142167428227	119.36986794931	0.78
17	11508	1.5210099712394	2	CA1	Wide Interneuron	Superficial	3.4758428919013	158.87594216209	0.73
18	12556	1.6617715917182	2	CA1	Pyramidal Cell	Superficial	0.95571838165021	197.78367030027	0.76
19	15082	1.9932303911731	3	CA1	Pyramidal Cell	Deep	0.33152101843257	177.06658740687	0.71
20	14148	1.874218231226	4	CA1	Wide Interneuron	Deep	8.5524455753463	80.616341762464	0.63
21	16556	2.1901783768396	3	CA1	Pyramidal Cell	Deep	4.7112829185794	91.187908746974	0.63
22	27770	3.6689448563798	3	CA1	Wide Interneuron	Deep	7.3460568959309	115.52919270815	0.73
23	22016	2.9093992254465	1	CA1	Wide Interneuron	Superficial	3.6791424418605	156.15204917325	0.77
24	173320	22.898087636459	2	CA1	Narrow Interneuron	Superficial	5.2215555042696	822.46693365895	0.19
25	34458	4.5523823305181	3	CA1	Pyramidal Cell	Deep	4.1499796854141	130.11600042744	0.65
26	97409	12.869727204035	2	CA1	Narrow Interneuron	Superficial	0.65702347832336	135.01624136302	0.25
27	113063	14.937035019753	1	CA1	Narrow Interneuron	Superficial	5.2625527360852	288.68606239364	0.22
28	130496	17.24102065241	1	CA1	Narrow Interneuron	Superficial	6.5902403138794	278.06386559206	0.22
29	193875	25.613443795458	3	CA1	Narrow Interneuron	Deep	2.5531914893617	142.02307485044	0.26
30	249487	32.960797245253	4	CA1	Narrow Interneuron	Deep	11.379350427076	215.99509057828	0.25
31	296532	39.175924211262	2	CA1	Narrow Interneuron	Superficial	2.7686725210095	320.5163167854	0.22