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_129.csv	1	Head position	100
OptiTrack, Flex 13	ham34_130.csv	2	Head position	100
OptiTrack, Flex 13	ham34_131.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, 62, 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	17	46629

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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	2724	0.24899201879118	2	CA1	Pyramidal Cell	Deep	3.6710719530103	515.52312794133	0.76
2	8700	0.78391846591986	2	CA1	Pyramidal Cell	Deep	3.448275862069	252.86995702772	0.79
3	15192	1.3673247149365	2	CA1	Pyramidal Cell	Deep	4.5418641390205	222.0254203328	0.78
4	15359	1.3830772586515	3	CA1	Pyramidal Cell	Deep	4.4924799791653	196.07632148047	0.78
5	215209	19.362999347844	2	CA1	Narrow Interneuron	Deep	3.5407441138614	409.91839431232	0.22
6	10185	0.96105227382703	4	CA1	Wide Interneuron	Superficial	1.2763868433972	338.53053445631	0.61
7	16994	1.5309639370652	2	CA1	Pyramidal Cell	Deep	3.0010591973638	249.2804231873	0.76
8	198165	17.829558409933	3	CA1	Narrow Interneuron	Deep	1.9478717230591	146.11237701162	0.27
9	228844	20.589821309495	4	CA1	Narrow Interneuron	Superficial	3.6575134152523	271.15718801038	0.24
10	1511	0.14096747301507	2	CA1	Pyramidal Cell	Deep	0	394.05022258323	0.8
11	5978	0.53809255828388	3	CA1	Pyramidal Cell	Deep	2.3419203747073	142.99919432802	0.75
12	9926	0.8938744980663	2	CA1	Pyramidal Cell	Deep	0.3022365504735	163.35781994671	0.76
13	16678	1.5026018016888	3	CA1	Pyramidal Cell	Deep	1.7388176040293	104.67688835413	0.75
14	18220	1.6395314906487	2	CA1	Pyramidal Cell	Deep	3.8419319429199	124.00897557911	0.81
15	31964	2.8788321661202	3	CA1	Pyramidal Cell	Deep	1.4704042047303	157.33500194981	0.66
16	34342	3.0904116383848	2	CA1	Pyramidal Cell	Deep	3.6398578999476	120.30511795984	0.73
17	330446	29.731245630288	2	CA1	Narrow Interneuron	Deep	1.6281026249372	278.30432307676	0.27