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_126.csv	1	Head position	100
OptiTrack, Flex 13	ham34_127.csv	2	Head position	100
OptiTrack, Flex 13	ham34_128.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	24	46599

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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	38200	5.2326297393731	2	CA1	Wide Interneuron	Deep	0.47120418848168	93.5602337255	0.48
2	4215	0.57858103310482	4	CA1	Pyramidal Cell	Superficial	3.55871886121	153.1145205062	0.78
3	18110	2.4840081005548	4	CA1	Pyramidal Cell	Deep	6.6813914964108	187.43264139688	0.77
4	11725	1.6063615699456	2	CA1	Pyramidal Cell	Deep	2.9850746268657	180.01929123282	0.73
5	11173	1.5306817016243	2	CA1	Pyramidal Cell	Deep	1.9690324890361	104.29934673055	0.76
6	34514	4.7278058647354	2	CA1	Pyramidal Cell	Deep	5.15732746132	177.30719321182	0.73
7	35933	4.9220275120695	3	CA1	Pyramidal Cell	Deep	5.4824256254696	169.15746735992	0.76
8	32186	4.4091730388836	3	CA1	Pyramidal Cell	Deep	2.0816504070093	150.37784785009	0.77
9	43163	5.9122501026302	3	CA1	Pyramidal Cell	Superficial	3.4056946922132	121.84506486009	0.69
10	38474	5.2713516063247	1	CA1	Pyramidal Cell	Deep	3.8727452305453	192.24267374287	0.8
11	1612	0.22660421480747	4	CA1	Wide Interneuron	Deep	0.62034739454094	316.26902247106	0.73
12	2745	0.38128723375751	4	CA1	Pyramidal Cell	Superficial	0.36429872495446	178.91137885026	0.75
13	7695	1.0545172032765	3	CA1	Pyramidal Cell	Deep	1.1695906432749	84.482546208997	0.66
14	9371	1.2841191703699	2	CA1	Pyramidal Cell	Deep	2.1342439440828	129.84092200644	0.77
15	149099	20.422832307102	3	CA1	Narrow Interneuron	Deep	1.3682184320485	154.45531242196	0.27
16	170019	23.28822907468	2	CA1	Narrow Interneuron	Deep	4.7406466336115	481.77205799005	0.22
17	194740	26.674266883135	4	CA1	Narrow Interneuron	Superficial	3.6202115641368	297.22562381288	0.22
18	303998	41.639717100092	2	CA1	Narrow Interneuron	Deep	3.3947591760472	241.15049662573	0.28
19	4735	0.89496859335953	4	CA1	Pyramidal Cell	Deep	0.84477296726505	351.24388417222	0.78
20	4352	0.59665725923802	3	CA1	Wide Interneuron	Deep	1.1488970588235	146.77810826716	0.78
21	5762	0.79129635533046	2	CA1	Wide Interneuron	Deep	0.34710170079833	264.73869006891	0.77
22	8030	1.0999520240103	2	CA1	Pyramidal Cell	Deep	1.3698630136986	126.36033999585	0.77
23	6920	0.9485809496296	3	CA1	Pyramidal Cell	Deep	5.3468208092486	126.55837380336	0.78
24	10633	1.4568496492936	3	CA1	Wide Interneuron	Deep	0.47023417661996	93.323613768668	0.66