Sessions

Extracellular

Equipment	File format	Sampling rate	nSamples	nChannels	Spike groups	Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch)	dat	20000	119738160	64	4	0.195

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Implanted probes

HAM31 : 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	58, 55, 53, 60, 54, 59, 51, 62, 52, 61, 49, 64, 50, 63, 56, 57
2	43, 42, 39, 46, 38, 47, 37, 48, 35, 44, 34, 40, 33, 36, 41, 45
3	24, 21, 20, 25, 17, 28, 18, 27, 22, 29, 26, 32, 30, 31, 19, 23
4	9, 8, 6, 11, 5, 12, 4, 13, 3, 14, 2, 15, 1, 16, 7, 10

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	ham31_29.csv	2	Head position	120

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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

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Channel tags

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

Tag	Channels	Spike groups
Theta	23	3
Ripple	23	3

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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	-8,15,0
reward_points_linearized	118,192
sessions	1,2,3	Control, Stim, PostStim
timefile	1	ham31_24_time
optiTrack_scaling	0.5
optiTrack_rotation_angle	-62

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Method	Format	Relative path	Channels	Spike sorter	Notes	Sorting completed	Units count	Sorting ID
KiloSort	Phy			Viktor Varga		Yes	57	25054

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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	3785	0.63484652622967	1	CA1	Wide Interneuron	Deep	0.52840158520476	163.11936107204	0.65	83.380612407241
2	2547	0.4324465256398	1	CA1	Wide Interneuron	Deep	0	482.37326665719	0.58	98.806648532712
3	5113	0.85409656903912	1	CA1	Pyramidal Cell	Deep	4.3027576765109	309.70212567125	0.59	50.484059329255
4	3081	0.51537154600072	1	CA1	Wide Interneuron	Deep	0.32456994482311	307.43714652509	0.54	53.865223290736
5	4940	0.82559342284816	1	CA1	Pyramidal Cell	Deep	1.0121457489879	239.58475514533	0.73	42.873791182697
6	6252	1.0485889660566	3	CA1	Wide Interneuron	Deep	1.1196417146513	173.24055540129	0.69	62.096424108047
7	5094	0.85406436682759	1	CA1	Wide Interneuron	Deep	0.39261876717707	333.21848443632	0.58	56.289005425534
8	9878	1.6514604850797	1	CA1	Wide Interneuron	Deep	0	223.6474795642	0.62	109.58224770593
9	8738	1.4622892985752	4	CA1	Pyramidal Cell	Deep	0.57221332112612	74.396086605006	0.56	50.530450285815
10	6912	1.1546524194274	1	CA1	Pyramidal Cell	Deep	0.28935185185185	333.99736340193	0.61	64.378989767348
11	9235	1.5434889631221	3	CA1	Pyramidal Cell	Deep	0.10828370330265	332.89895081443	0.7	64.517277650932
12	13146	2.1984623139142	3	CA1	Pyramidal Cell	Deep	1.5213753232923	155.76478292793	0.7	61.914372866812
13	15472	2.5864839912196	2	CA1	Pyramidal Cell	Deep	2.3267838676319	143.73772824276	0.7	62.417544818687
14	24686	4.1259673578754	1	CA1	Pyramidal Cell	Deep	3.3217208134165	221.41631175777	0.65	82.51594659474
15	14577	2.4349185459863	4	CA1	Wide Interneuron	Deep	1.2348219798312	104.2993016951	0.63	97.408411002167
16	14627	2.4532638724382	1	CA1	Pyramidal Cell	Deep	0.27346687632461	277.50873626191	0.59	86.714515510881
17	11935	2.0023366522154	3	CA1	Pyramidal Cell	Deep	0	194.82156301479	0.65	54.957682999322
18	15697	2.621911033399	1	CA1	Pyramidal Cell	Deep	2.038606103077	183.5958739891	0.6	97.705775896738
19	13088	2.1862203008829	1	CA1	Pyramidal Cell	Deep	2.3685819070905	154.21803007102	0.54	87.534015573101
20	15225	2.5455623900539	2	CA1	Pyramidal Cell	Deep	2.6929392446634	177.48448272318	0.7	57.600002336526
21	27240	4.5525207979506	2	CA1	Pyramidal Cell	Deep	7.0117474302496	129.42739798998	0.73	64.373307744728
22	133884	22.362985374029	4	CA1	Narrow Interneuron	Deep	2.4648202921932	192.40454445883	0.24	0
23	30901	5.1616684555	3	CA1	Pyramidal Cell	Deep	6.5046438626582	118.6496936631	0.72	66.032221795338
24	771	0.13158731922872	4	CA1	Wide Interneuron	Deep	0	531.44375403984	0.71	100.32977567868
25	919	0.15553026529266	2	CA1	Pyramidal Cell	Deep	0	288.44754872837	0.67	44.336617181166
26	1145	0.19536263532286	3	CA1	Wide Interneuron	Deep	0.87336244541485	285.87886284154	0.69	49.110116619615
27	1150	0.195449228154	3	CA1	Pyramidal Cell	Deep	0	272.10822463026	0.72	45.404140553547
28	1370	0.22914126251082	2	CA1	Pyramidal Cell	Deep	0	259.82534451623	0.6	145.51173742955
29	1368	0.23410370393644	1	CA1	Wide Interneuron	Deep	0.73099415204678	232.17757292758	0.61	48.530396367775
30	1451	0.24856300902259	2	CA1	Pyramidal Cell	Deep	0	205.98945724569	0.76	40.962298189855
31	1443	0.24115492653987	1	CA1	Pyramidal Cell	Deep	0	314.16655917628	0.6	68.867757936026
32	1495	0.24986454667435	4	CA1	Wide Interneuron	Deep	0	177.85252740968	0.54	51.645106451443
33	1829	0.30724776564814	1	CA1	Pyramidal Cell	Deep	0	205.09728439761	0.69	73.327478827217
34	2324	0.38880313554672	4	CA1	Wide Interneuron	Deep	0.4302925989673	190.71523414508	0.62	46.84191672832
35	3178	0.53260811481757	3	CA1	Pyramidal Cell	Deep	2.2026431718062	128.56832368687	0.62	54.412008491957
36	3546	0.5950642741156	2	CA1	Pyramidal Cell	Deep	0	330.81843735063	0.58	172.3821009687
37	3657	0.61208284167184	4	CA1	Pyramidal Cell	Deep	0	134.75195482734	0.55	44.973238170793
38	3700	0.62791818612968	4	CA1	Wide Interneuron	Deep	0	244.56640851799	0.71	70.803344727787
39	3584	0.60048239813771	3	CA1	Wide Interneuron	Deep	0.27901785714286	146.15114388344	0.73	38.16055768808
40	3924	0.65790117303326	1	CA1	Wide Interneuron	Deep	0	411.96922756574	0.58	103.1888347057
41	3619	0.60464116981676	2	CA1	Pyramidal Cell	Deep	0.82895827576679	76.212507076288	0.52	48.048862023178
42	4019	0.67313450273328	1	CA1	Pyramidal Cell	Deep	0	284.74877142476	0.74	56.267608223243
43	5097	0.85192441359558	1	CA1	Wide Interneuron	Deep	1.765744555621	184.21491588553	0.76	46.565571352629
44	4124	0.69158879445039	4	CA1	Wide Interneuron	Deep	0.7274490785645	208.65084279766	0.67	57.202816770458
45	5486	0.91728676740268	4	CA1	Pyramidal Cell	Deep	0.729128691214	107.8570989111	0.69	52.756505434841
46	5965	0.99767234595343	3	CA1	Pyramidal Cell	Deep	0.16764459346186	196.87394768262	0.71	47.051259738992
47	7689	1.286309339111	3	CA1	Wide Interneuron	Deep	0	400.11353683267	0.68	244.47488333987
48	8427	1.4096913410801	1	CA1	Pyramidal Cell	Deep	0.83066334401329	513.41828924166	0.58	107.14104894328
49	9018	1.5065270308671	1	CA1	Pyramidal Cell	Deep	1.3306719893546	195.02978742256	0.74	82.633631528558
50	12170	2.0333253843733	2	CA1	Pyramidal Cell	Deep	0.65735414954807	211.36462556579	0.68	56.096171601604
51	12155	2.0318565689463	3	CA1	Pyramidal Cell	Deep	0.16454134101193	158.1407110128	0.69	51.217732899605
52	12658	2.1157460867347	2	CA1	Pyramidal Cell	Deep	2.2910412387423	95.723489671369	0.58	60.4998987663
53	18068	3.0186539464853	2	CA1	Pyramidal Cell	Deep	0.055346468895284	240.4217502569	0.7	68.304394486658
54	19406	3.2441114366488	3	CA1	Pyramidal Cell	Deep	3.9163145418943	96.060812642837	0.68	63.198550922005
55	218933	36.569007224773	3	CA1	Narrow Interneuron	Deep	0.14159583068793	178.15726783588	0.28	0
56	70380	11.756018616335	3	CA1	Narrow Interneuron	Deep	1.1935208866155	111.15128598422	0.3	99.497618376451
57	126521	21.133321709987	2	CA1	Narrow Interneuron	Deep	0.92474767034722	80.704952152304	0.37	659.33996490999