Sessions

Extracellular

Equipment	File format	Sampling rate	nSamples	nChannels	Spike groups	Least significant bit
Amplipex, KJE-1001 256 Channel system	dat	20000	453600000	166	16	0.3815

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Implanted probes

Rat09 : #1 Silicon probe NeuroNexus Buzsaki32 (32 ch, 4 shanks, staggered) | Region: HIP | Coordinates: -3.5, 2.5, 1.6
Rat09 : #2 Silicon probe NeuroNexus Buzsaki64L (64 ch, 8 shanks, staggered) | Region: BLA | Coordinates: -2.5, -5, 8
Rat09 : #3 Silicon probe NeuroNexus Buzsaki64L (64 ch, 8 shanks, staggered) | Region: BLA | Coordinates: -2.5, 5, 8

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

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
			abc

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Equipment	File names	Epoch	Type	Framerate	Notes
	Rat09-20140331-01-prerun.mpg	1	Video	30
Basler, acA1300-200uc	Rat09-20140331-02-presleep.mpg	2	Video	30
Basler, acA1300-200uc	Rat09-20140331-03-run.mpg	3	Video	30
Basler, acA1300-200uc	Rat09-20140331-04-postsleep.mpg	4	Video	30
Basler, acA1300-200uc	Rat09-20140331-05-postrun.mpg	5	Video	30

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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
HIP – Hippocampal region (View in Atlas)		1,2,3,4
BLA – Basolateral amygdalar nucleus (View in Atlas)		5,6,7,8,13,14,15,16,17,18,19
PIR – Piriform area (View in Atlas)		9,10,11,12
EPd – Endopiriform nucleus, dorsal part (View in Atlas)		20

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Channel tags

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

Tag	Channels	Spike groups
Accelerometer	161,162,163	22
Airpuff	164	21
Rewards	165,166	21
Ripple	3	4
RippleNoise	17

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Analysis tags

Tag	Value	Description

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Method	Format	Relative path	Channels	Spike sorter	Notes	Sorting completed	Units count	Sorting ID
Klustakwik	Klustakwik			Gabrielle Girardeau		Yes	74	49516

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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	26082	1.0899556162359	16		Pyramidal Cell	Deep	0.3067249444061	145.43713632546	0.6
2	4084	0.17052979885996	16		Pyramidal Cell	Deep	0	188.0968875459	0.61
3	7145	0.30295360322384	16		Pyramidal Cell	Deep	0.13995801259622	304.90822843174	0.6
4	15560	0.66481852244562	16		Pyramidal Cell	Deep	0	381.84858237206	0.58
5	315443	13.170878538408	16		Narrow Interneuron	Deep	0.053892462346605	154.10991983272	0.29
6	5024	0.20989221332977	16		Pyramidal Cell	Deep	0.19904458598726	117.68142989515	0.55
7	6334	0.26477675257604	16		Pyramidal Cell	Deep	0	84.580356495882	0.54
8	2270	2.5113708677439	16		Pyramidal Cell	Deep	0	195.86155416681	0.6
9	10355	0.43255218210525	16		Pyramidal Cell	Deep	0	93.578340588215	0.63
10	25343	1.0595333046566	16		Wide Interneuron	Deep	0	111.4783356233	0.7
11	12274	0.51281529238599	16		Wide Interneuron	Deep	0.40736516213133	104.31295796757	0.67
12	10751	0.4489532380271	15		Pyramidal Cell	Deep	0.5580876197563	108.31732107469	0.69
13	63657	2.6583744360421	15		Wide Interneuron	Deep	2.4977614402187	79.885599060607	0.43
14	2963	0.12564807510944	15		Pyramidal Cell	Deep	0	174.8629043847	0.55
15	12971	0.54159455696593	15		Pyramidal Cell	Deep	0.15419011641354	102.49385885319	0.55
16	4209	0.17594722031515	15		Pyramidal Cell	Deep	0	224.91696252477	0.59
17	12435	0.51948835497921	15		Wide Interneuron	Deep	0.080418174507439	85.125559094332	0.51
18	14226	0.59409186043286	15		Pyramidal Cell	Deep	0.63264445381695	198.54369482701	0.59
19	3955	0.1654889779194	15		Pyramidal Cell	Deep	0	171.64878257318	0.58
20	24816	1.0365961182654	15		Pyramidal Cell	Deep	0.56415215989684	129.652083593	0.51
21	126147	5.2671729391329	14		Wide Interneuron	Deep	0.45978104909352	186.04830133985	0.59
22	104511	4.3638147848292	14		Wide Interneuron	Deep	1.3108667987102	84.722377155816	0.65
23	42184	1.7613343555759	14		Narrow Interneuron	Deep	0.047411340792718	259.74245208599	0.34
24	5043	0.21160121116287	14		Pyramidal Cell	Deep	0.39658933174698	140.6777394687	0.63
25	10740	0.44877550412814	14		Wide Interneuron	Deep	0.65176908752328	119.54744752956	0.58
26	94009	3.9252614749451	14		Wide Interneuron	Deep	1.627503749641	87.685729949775	0.7
27	6506	0.27218798217431	13		Wide Interneuron	Deep	0	242.92594564126	0.62
28	474963	19.831363908093	13		Narrow Interneuron	Deep	3.1412973221072	78.928748790821	0.26
29	25561	1.0714037312175	13		Pyramidal Cell	Deep	0.039122100074332	135.84916996416	0.6
30	6577	0.27466593541577	13		Wide Interneuron	Deep	0	73.864521606415	0.59
31	2442	0.10231708433985	13		Pyramidal Cell	Deep	0	91.148558599082	0.61
32	2629	0.11030357412761	13		Pyramidal Cell	Deep	0	283.29136695595	0.64
33	59256	2.4741481197816	13		Wide Interneuron	Deep	0.57378155798569	71.275945679929	0.53
34	232254	9.69745865531	13		Narrow Interneuron	Deep	3.1603330836067	70.195415605617	0.36
35	49129	2.0513112488057	13		Wide Interneuron	Deep	0.67170103197704	95.61566012727	0.6
36	4499	0.18842914107386	13		Wide Interneuron	Deep	0	213.84603288654	0.59
37	42699	1.7829987281785	12		Wide Interneuron	Deep	0.88995058432282	107.63969002438	0.61
38	104297	4.3548228505439	12		Wide Interneuron	Deep	0.6615722408123	62.085931570149	0.5
39	9335	0.39131216732597	12		Pyramidal Cell	Deep	0	241.61313400027	0.65
40	2363	0.099541538339577	12		Pyramidal Cell	Deep	0	146.56100937398	0.65
41	7979	0.33362971839561	12		Pyramidal Cell	Deep	0.37598696578519	135.6929508584	0.66
42	10051	0.42113102847328	12		Pyramidal Cell	Deep	0.49746293901104	179.82975442952	0.62
43	516525	21.566881217034	11		Wide Interneuron	Deep	2.116064082087	80.970929791368	0.44
44	113817	4.7527836556156	11		Wide Interneuron	Deep	0.89617543952134	103.09265388587	0.66
45	38654	1.6152480013061	11		Wide Interneuron	Deep	0.31044652558597	86.232833343957	0.71
46	78605	3.2821553364807	11		Wide Interneuron	Deep	0.92869410342854	76.048357581774	0.65
47	232948	9.7264549168702	11		Narrow Interneuron	Deep	2.137816164981	92.133059171567	0.38
48	1362	0.063177585987779	11		Wide Interneuron	Deep	0	149.45562280602	0.66
49	6075	0.25398646334931	11		Pyramidal Cell	Deep	1.4814814814815	136.87299965783	0.59
50	45379	1.8947538219103	11		Wide Interneuron	Deep	0.39665924766963	98.315358090711	0.64
51	6648	0.28020004386471	11		Pyramidal Cell	Deep	0	223.43071240345	0.63
52	5570	0.28952483651645	11		Pyramidal Cell	Deep	0	267.94988835431	0.64
53	44591	1.8689963453998	11		Wide Interneuron	Deep	0.044852100199592	190.64536058357	0.62
54	6825	0.2855033896939	11		Pyramidal Cell	Deep	0.14652014652015	170.42346456951	0.69
55	8648	0.36127702127731	10		Wide Interneuron	Deep	0.11563367252544	80.762714520213	0.54
56	76641	3.2001299075452	8		Wide Interneuron	Superficial	0.11743061807649	115.38120441861	0.58
57	14583	0.6112433364291	10		Pyramidal Cell	Deep	0.068572995954193	96.389480879391	0.59
58	28696	1.1982654472941	10		Wide Interneuron	Deep	0.52272093671592	67.769873031064	0.56
59	11715	0.48970447444797	7		Pyramidal Cell	Deep	0.34144259496372	120.58707232159	0.73
60	3183	0.13318762838322	7		Narrow Interneuron	Deep	0	70.028230022165	0.24
61	3568	0.14942057346205	7		Pyramidal Cell	Deep	0	332.52025746027	0.72
62	3955	0.16515677013649	7		Pyramidal Cell	Deep	0	239.922746349	0.66
63	5192	0.21681722058581	7		Pyramidal Cell	Deep	0	302.11240203857	0.7
64	18866	0.78778233857931	7		Wide Interneuron	Deep	0.26502703275734	106.51605447863	0.59
65	77909	3.2529888701113	6		Wide Interneuron	Superficial	0.23103877600791	70.585041718861	0.71
66	4574	0.19144024058957	6		Wide Interneuron	Superficial	0.21862702229996	71.138098521582	0.71
67	13618	0.56973790828299	6		Pyramidal Cell	Superficial	0	129.40183251429	0.69
68	4310	0.18023459489597	6		Wide Interneuron	Superficial	0	57.62873024341	0.73
69	32920	1.3751415835561	5		Pyramidal Cell	Superficial	0.66828675577157	46.658611678781	0.69
70	17591	0.73458197068085	5		Pyramidal Cell	Superficial	0.28423625717697	90.589188729205	0.72
71	45777	1.9160277373529	5		Wide Interneuron	Superficial	0.30583043886668	194.10627220938	0.67
72	15591	0.65109560658696	5		Pyramidal Cell	Superficial	0.064139567699314	171.01917429674	0.69
73	9652	0.40464669992474	4		Wide Interneuron	Deep	0.20721094073767	61.607036751709	0.71
74	29016	1.2115328608873	4		Wide Interneuron	Deep	0.034463744141163	90.834040955519	0.66