Sessions

Extracellular

Equipment	File format	Sampling rate	nSamples	nChannels	Spike groups	Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch)	dat	20000		128	14	0.195

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Implanted probes

MS21 : #1 Silicon probe NeuroNexus Buzsaki64sp (64 ch, 6 shanks, staggered Non-uniform ) | Region: HIP | Coordinates: -3.3, -2.5, -1.6
MS21 : #2 Silicon probe NeuroNexus Buzsaki64 (64 ch, 8 shanks, staggered) | Region: HIP | Coordinates: -3.3, 2.5, 1.6

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	50, 57, 49, 58, 52, 55, 51, 56, 54, 53
2	60, 37, 59, 35, 62, 34, 61, 33, 64, 63
3	38, 44, 39, 48, 41, 47, 42, 46, 43, 45
4	40, 28, 36, 25, 30, 23, 26, 24, 22, 21
5	27, 6, 29, 5, 32, 4, 31, 3, 1, 2
6	7, 16, 8, 15, 9, 14, 10, 13, 11, 12
7	17, 20, 19, 18
8	114, 121, 113, 122, 116, 119, 115, 120, 118, 117
9	124, 101, 123, 99, 126, 98, 125, 97, 128, 127
10	102, 108, 103, 112, 105, 111, 106, 110, 107, 109
11	104, 92, 100, 89, 94, 87, 90, 88, 86, 85
12	91, 70, 93, 69, 96, 68, 95, 67, 65, 66
13	71, 80, 72, 79, 73, 78, 74, 77, 75, 76
14	81, 84, 83, 82

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
	aux	4	Temperature	MS temperature probe
	adc	1	WheelPosition	Running wheel
	dig	1	OptitrackSync	TTL sync
	dig	2	BaslerSync	TTL sync
	dig	5	ArduinoRemoteCh1	Remote Button A
	dig	6	ArduinoRemoteCh2	Remote Button B
	dig	7	ArduinoRemoteCh3	Remote Button C
	dig	8	ArduinoRemoteCh4	Remote Button D
	aux	1	AccelerometerX	Head mounted accelerometer
	aux	2	AccelerometerY	Head mounted accelerometer
	aux	3	AccelerometerZ	Head mounted accelerometer
	adc		ch_opto_on
	adc		ch_opto_off

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Equipment	File names	Epoch	Type	Framerate	Notes
	Take 2018-07-16 09.52.52 PM_002.csv		Head position	120
			Video

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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)	1:128

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Channel tags

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

Tag	Channels	Spike groups
Theta	64
BadChannels

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Analysis tags

Tag	Value	Description
OptiTracktracking_offset	5,-5,0
cooling_onsets
cooling_offsets
time_frame

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Method	Format	Relative path	Channels	Spike sorter	Notes	Sorting completed	Units count	Sorting ID
KiloSort	Phy	Kilosort_2018-07-18_014303		Peter Petersen		Yes	67	7843

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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	8179	3.5391920845335	7	Unknown	Narrow Interneuron	Unknown	0.61132167746668	128.64429506586	0.37
2	8705	3.7633013573046	11	Unknown	Pyramidal Cell	Unknown	0	438.37932705959	0.61
3	9124	3.9438298179512	2	Unknown	Narrow Interneuron	Unknown	0.2192021043402	126.21483607424	0.28
4	10057	4.3471681227612	11	Unknown	Pyramidal Cell	Unknown	0.29829969175699	249.19725355216	0.64
5	16448	7.1087261688253	1	Unknown	Narrow Interneuron	Unknown	1.033560311284	149.24954878125	0.26
6	10730	4.637662417594	8	Unknown	Pyramidal Cell	Unknown	3.1686859273066	129.9125673555	0.69
7	3077	1.3300231591309	6	Unknown	Narrow Interneuron	Unknown	0	133.82467626075	0.3
8	45166	19.520363753158	5	Unknown	Narrow Interneuron	Unknown	0.17712438559979	151.52585826146	0.28
9	22737	9.8272713457566	9	Unknown	Narrow Interneuron	Unknown	0.39583058450983	92.843950083684	0.4
10	58934	25.470536548215	9	Unknown	Narrow Interneuron	Unknown	0.050904401533919	172.67263393436	0.38
11	2697	1.1695742606584	11	Unknown	Pyramidal Cell	Unknown	0	115.00546967217	0.55
12	21271	9.1930281571548	10	Unknown	Narrow Interneuron	Unknown	0.42311127826618	161.74385049599	0.26
13	31809	13.747648596289	10	Unknown	Narrow Interneuron	Unknown	0.062875286868496	230.99529773655	0.26
14	7442	3.2649944662468	10	Unknown	Pyramidal Cell	Unknown	0	305.06732979698	0.73
15	12301	5.3258409317091	2	Unknown	Pyramidal Cell	Unknown	14.795545077636	156.31241016154	0.66
16	8822	3.8156419521312	3	Unknown	Pyramidal Cell	Unknown	0.56676490591703	142.47738328612	0.73
17	10745	4.6441213484488	5	Unknown	Pyramidal Cell	Unknown	2.6989297347604	195.8201232062	0.71
18	13837	5.9899588860772	6	Unknown	Pyramidal Cell	Unknown	8.8169400881694	163.63432434514	0.69
19	79136	34.201521366097	10	Unknown	Narrow Interneuron	Unknown	0.37909421754953	443.60183259468	0.21
20	17592	7.7107252519612	12	Unknown	Narrow Interneuron	Unknown	0.62528422010005	170.24703722001	0.22
21	6169	2.6709062884235	13	Unknown	Pyramidal Cell	Unknown	3.8904198411412	105.27929942023	0.7
22	6445	2.7858757525782	1	Unknown	Pyramidal Cell	Unknown	2.9480217222653	175.1876412594	0.63
23	1609	0.69686177244345	11	Unknown	Pyramidal Cell	Unknown	1.2430080795525	264.76940651727	0.68
24	2074	0.90798170202352	5	Unknown	Pyramidal Cell	Unknown	1.4464802314368	95.573992349777	0.61
25	2007	0.87314541434209	11	Unknown	Pyramidal Cell	Unknown	0	384.83930626421	0.73
26	1984	0.85876661117147	1	Unknown	Pyramidal Cell	Unknown	2.5201612903226	118.51007264914	0.64
27	2009	0.86862247241778	5	Unknown	Pyramidal Cell	Unknown	4.4798407167745	221.11504521337	0.63
28	2221	2.5408091006954	3	Unknown	Pyramidal Cell	Unknown	4.0522287257992	89.944354280395	0.67
29	2344	1.0185106489112	2	Unknown	Pyramidal Cell	Unknown	0.42662116040956	231.28808494949	0.67
30	2445	1.0730222116037	3	Unknown	Pyramidal Cell	Unknown	1.2269938650307	102.90816277499	0.66
31	1718	0.74343771788854	13	Unknown	Pyramidal Cell	Unknown	5.8207217694994	112.15702014882	0.58
32	2424	1.0757632210534	2	Unknown	Pyramidal Cell	Unknown	3.7128712871287	90.699947818991	0.73
33	1916	0.8306729003263	12	Unknown	Pyramidal Cell	Unknown	1.0438413361169	84.711117524408	0.7
34	2057	0.89529839943105	12	Unknown	Pyramidal Cell	Unknown	0	116.4347533314	0.57
35	2295	0.99413107464443	11	Unknown	Pyramidal Cell	Unknown	0	116.87299750751	0.6
36	2461	1.0655048665993	11	Unknown	Pyramidal Cell	Unknown	0.8126777732629	104.00975548141	0.54
37	2516	1.0936772609262	11	Unknown	Wide Interneuron	Unknown	0.39745627980922	107.791063016	0.68
38	2555	1.1263281000809	11	Unknown	Pyramidal Cell	Unknown	0.39138943248532	143.2084265373	0.71
39	2659	1.1497818279252	3	Unknown	Wide Interneuron	Unknown	0.75216246709289	71.786421758458	0.65
40	2394	1.0362221987622	10	Unknown	Pyramidal Cell	Unknown	0.41771094402673	260.70301373838	0.76
41	2389	1.0363176411172	11	Unknown	Pyramidal Cell	Unknown	0.41858518208455	119.38312096199	0.58
42	2903	2.1699706706375	3	Unknown	Pyramidal Cell	Unknown	1.7223561832587	64.105642862642	0.64
43	2793	1.2084392412282	9	Unknown	Pyramidal Cell	Unknown	2.5062656641604	126.10260119947	0.69
44	3029	1.3168990934874	12	Unknown	Pyramidal Cell	Unknown	1.320567844173	174.24932845064	0.7
45	3283	1.4210053987601	1	Unknown	Pyramidal Cell	Unknown	0	521.37939590454	0.73
46	3561	1.5405234898684	1	Unknown	Pyramidal Cell	Unknown	4.4931199101376	146.48935152774	0.67
47	3597	1.5814561363993	5	Unknown	Pyramidal Cell	Unknown	0	236.08501046612	0.75
48	3996	1.7288281554115	9	Unknown	Pyramidal Cell	Unknown	1.2512512512513	142.06781738031	0.7
49	4204	1.8176148845884	9	Unknown	Pyramidal Cell	Unknown	0	631.15828143924	0.77
50	3874	1.6909135699611	11	Unknown	Pyramidal Cell	Unknown	0	506.58906474653	0.67
51	511	0.22378293668246	11	Unknown	Wide Interneuron	Unknown	0	863.00205541614	0.69
52	4282	1.8528690435258	9	Unknown	Wide Interneuron	Unknown	5.8383932741709	196.54281526776	0.7
53	2571	1.1313207016309	12	Unknown	Pyramidal Cell	Unknown	0.77790742901595	128.35668077651	0.61
54	2635	1.1521354152194	9	Unknown	Wide Interneuron	Unknown	0.75901328273245	88.985501413922	0.71
55	2822	1.2229805057687	1	Unknown	Pyramidal Cell	Unknown	0.35435861091425	122.23172724309	0.61
56	3159	1.3663858568553	9	Unknown	Pyramidal Cell	Unknown	1.8993352326686	257.90546708675	0.74
57	3904	1.6936661592682	2	Unknown	Wide Interneuron	Unknown	0.51229508196721	97.067611463616	0.71
58	3396	2.1147159947628	1	Unknown	Pyramidal Cell	Unknown	0.58892815076561	163.83923822908	0.8
59	4560	1.9844185284897	2	Unknown	Pyramidal Cell	Unknown	0.21929824561404	138.16194710466	0.72
60	4242	1.8358398656868	9	Unknown	Narrow Interneuron	Unknown	0.94295143800094	176.37082228313	0.25
61	4734	2.0490143803673	1	Unknown	Pyramidal Cell	Unknown	2.9573299535277	116.29485257292	0.64
62	5118	2.2145420948517	2	Unknown	Wide Interneuron	Unknown	0.39077764751856	139.91509622405	0.64
63	5575	2.4455774572066	9	Unknown	Pyramidal Cell	Unknown	0	213.87532521079	0.67
64	7347	4.5465597233969	8	Unknown	Wide Interneuron	Unknown	0	136.88072818727	0.63
65	1056	0.45820573576386	9	Unknown	Pyramidal Cell	Unknown	0	325.44497909842	0.76
66	6833	3.3677063135351	12	Unknown	Narrow Interneuron	Unknown	0	109.20282609302	0.42
67	7303	3.1607201300262	6	Unknown	Pyramidal Cell	Unknown	6.9834314665206	127.83857577606	0.69