Sessions

Extracellular

Equipment	File format	Sampling rate	nSamples	nChannels	Spike groups	Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch)	dat	20000	181185000	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
OptiTrack, Flex 13	Take 2018-06-25 03.39.35 PM.csv	1	Head position	120
Basler, acA1300-200uc	Basler acA1300-200uc (21965891)_20180625_153931497.avi	1	Video	10

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

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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_2019-07-25_220231		Peter Petersen		Yes	68	6240

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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	45169	4.9861006469733	3	CA1	Pyramidal Cell	Unknown	10.737452677721	156.73782109486	0.72
2	32167	3.5512669158799	13	CA1	Pyramidal Cell	Unknown	7.492150340411	176.35960125313	0.64
3	41425	4.5730127491511	10	CA1	Narrow Interneuron	Unknown	0.74834037417019	105.20340413389	0.4
4	14597	1.6114797858866	13	CA1	Pyramidal Cell	Unknown	6.0971432486127	148.60336682203	0.71
5	14112	1.558000106152	2	CA1	Pyramidal Cell	Unknown	3.4013605442177	94.927042760509	0.67
6	23833	2.631172717478	2	CA1	Pyramidal Cell	Unknown	6.7553392355138	134.39948279827	0.69
7	18653	2.0594448209089	3	CA1	Pyramidal Cell	Unknown	6.8085562644079	133.96846935264	0.69
8	24030	2.6534135853837	13	CA1	Pyramidal Cell	Unknown	6.200582605077	237.6018745639	0.73
9	29237	3.2281445000376	13	CA1	Pyramidal Cell	Unknown	9.7137189178096	156.5659154794	0.71
10	6234	0.68969044167211	2	CA1	Pyramidal Cell	Unknown	2.7269810715432	344.79351044009	0.7
11	42862	4.7317954225438	13	CA1	Pyramidal Cell	Unknown	8.8423312024637	375.06895960124	0.59
12	22062	2.4357919522326	13	CA1	Pyramidal Cell	Unknown	3.943432145771	127.68779631727	0.63
13	11134	1.2307295459443	13	CA1	Pyramidal Cell	Unknown	4.0416741512484	286.41326179762	0.72
14	106558	11.778440046214	11	CA1	Wide Interneuron	Unknown	1.4921451228439	88.122632025158	0.45
15	202334	22.334808665849	11	CA1	Narrow Interneuron	Unknown	1.3492542034458	92.319191540229	0.24
16	13677	1.510858629454	13	CA1	Pyramidal Cell	Unknown	2.1203480295386	159.6174952777	0.73
17	154416	17.045362536226	6	CA1	Narrow Interneuron	Unknown	4.1640762615273	112.11422131898	0.32
18	15108	1.6679978374322	3	CA1	Pyramidal Cell	Unknown	4.5671167593328	97.884522151288	0.73
19	35858	3.966795911481	4	CA1	Wide Interneuron	Unknown	3.6811869038987	96.892538588608	0.43
20	8855	0.97775232517757	5	CA1	Pyramidal Cell	Unknown	1.468097120271	100.67972807991	0.72
21	338398	37.354257787429	3	CA1	Narrow Interneuron	Unknown	0.58510984107471	334.7285582028	0.36
22	7697	0.84977486789779	3	CA1	Pyramidal Cell	Unknown	0.77952449006106	169.44381504587	0.73
23	21261	2.3474626270833	2	CA1	Pyramidal Cell	Unknown	6.631861154226	92.650494809007	0.67
24	7293	0.80654988846155	2	CA1	Pyramidal Cell	Unknown	6.0331825037707	215.80110560022	0.69
25	4077	0.45208927369297	1	CA1	Pyramidal Cell	Unknown	1.96222712779	253.8613213025	0.73
26	35622	3.9324223453392	1	CA1	Pyramidal Cell	Unknown	6.14788613778	118.05929493262	0.64
27	42243	4.6630223716785	2	CA1	Narrow Interneuron	Unknown	1.7754420850792	116.82875252932	0.33
28	12112	1.3372705307061	1	CA1	Pyramidal Cell	Unknown	2.9722589167768	121.88411862581	0.71
29	6226	0.68775042211014	1	CA1	Pyramidal Cell	Unknown	2.4092515258593	278.13451508056	0.71
30	27335	3.0178132568545	1	CA1	Pyramidal Cell	Unknown	4.2802268154381	152.92536331128	0.72
31	12901	1.4243176700269	1	CA1	Pyramidal Cell	Unknown	8.3714440741028	367.38818315566	0.72
32	837	0.094697941991401	1	CA1	Pyramidal Cell	Unknown	2.389486260454	308.1119017199	0.71
33	5002	0.55289027147564	3	CA1	Wide Interneuron	Unknown	1.1995201919232	100.12684350188	0.74
34	8031	0.88673488827944	3	CA1	Pyramidal Cell	Unknown	1.7432449259121	99.779372714713	0.73
35	7239	0.79946300912322	2	CA1	Pyramidal Cell	Unknown	2.4865312888521	94.638896704833	0.71
36	820	0.10463136243298	13	CA1	Pyramidal Cell	Unknown	0	431.82373386382	0.72
37	1339	0.19119003732846	11	CA1	Pyramidal Cell	Unknown	11.949215832711	195.89154332737	0.69
38	2671	0.29625243333774	1	CA1	Pyramidal Cell	Unknown	0	142.7494858411	0.66
39	3271	0.36624306436994	1	CA1	Pyramidal Cell	Unknown	0	313.66746789249	0.73
40	4780	0.5296710855031	13	CA1	Pyramidal Cell	Unknown	3.347280334728	238.26858341668	0.71
41	4239	0.47146313395192	2	CA1	Pyramidal Cell	Unknown	1.1795234725171	133.5217606809	0.6
42	10436	1.1523079228236	2	CA1	Pyramidal Cell	Unknown	0.57493292449214	115.56208310749	0.69
43	7521	0.83049309149778	1	CA1	Pyramidal Cell	Unknown	1.861454593804	102.33710378502	0.7
44	4878	0.54116913100718	2	CA1	Pyramidal Cell	Unknown	0.410004100041	165.98830754526	0.72
45	5400	0.59608713173392	2	CA1	Pyramidal Cell	Unknown	0	123.04224047086	0.6
46	11261	1.2433135942441	13	CA1	Pyramidal Cell	Unknown	3.1968741674807	102.94348608279	0.69
47	9502	1.0493059965011	1	CA1	Pyramidal Cell	Unknown	1.9995790359924	86.758882889823	0.71
48	9205	1.0162508502338	13	CA1	Pyramidal Cell	Unknown	2.607278652906	99.758978910494	0.66
49	6013	0.6702041885789	2	CA1	Pyramidal Cell	Unknown	10.310992848828	193.82752525728	0.7
50	8309	0.93611180043282	11	CA1	Narrow Interneuron	Unknown	4.0919484895896	118.20624473614	0.33
51	7602	0.83929978748945	3	CA1	Wide Interneuron	Unknown	0.78926598263615	75.87879219304	0.61
52	11417	1.2608293265301	2	CA1	Pyramidal Cell	Unknown	4.3794341771043	99.510687396753	0.73
53	6601	0.73078012161826	10	CA1	Pyramidal Cell	Unknown	1.3634297833662	192.64232853091	0.71
54	8712	0.96225509119593	2	CA1	Pyramidal Cell	Unknown	1.4921946740129	95.979141384987	0.6
55	10666	1.1774772903424	3	CA1	Pyramidal Cell	Unknown	2.812675792237	80.600928118151	0.65
56	11482	1.2676849614959	1	CA1	Pyramidal Cell	Unknown	4.1804563664867	111.28541179425	0.67
57	13726	1.5167151155081	14	CA1	Wide Interneuron	Unknown	0.87425324202244	87.891057846908	0.68
58	15958	1.7615614432946	3	CA1	Wide Interneuron	Unknown	0.56398044867778	79.79111223105	0.44
59	13477	1.4881504570575	13	CA1	Pyramidal Cell	Unknown	2.226014691697	100.28322276247	0.66
60	24519	2.7077273828399	7	CA1	Wide Interneuron	Unknown	5.0980871976834	104.19258054529	0.65
61	16244	5.728010613675	11	CA1	Narrow Interneuron	Unknown	75.289337601576	216.63429170441	0.3
62	14424	1.5924197815499	10	CA1	Narrow Interneuron	Unknown	1.1785912368275	73.568420871541	0.35
63	19115	2.1101402000773	2	CA1	Narrow Interneuron	Unknown	1.3078733978551	92.331514332125	0.34
64	52584	5.8114772110526	12	CA1	Pyramidal Cell	Unknown	4.6211775445002	88.836390335907	0.76
65	62213	6.8676559275569	11	CA1	Narrow Interneuron	Unknown	0.43399289537556	81.998077757087	0.4
66	66722	7.3652217379968	2	CA1	Narrow Interneuron	Unknown	0.8393033781961	99.847551075466	0.41
67	95225	10.511463878672	1	CA1	Wide Interneuron	Unknown	0.85061695983198	163.80174815601	0.63
68	131140	14.475853001698	6	CA1	Narrow Interneuron	Unknown	9.73005947842	134.62687065249	0.33