# minis-benchmarking-data
Intracellular membrane potential noise recordings in cortical pyramidal cells after blocking action potentials and synaptic transmission (0.5 or 1 μM TTX, 12.5 μM gabazine, 40 μM NBQX, and 50 μM CPP) and simulations of miniature excitatory postsynaptic potentials (mEPSPs) in cortical pyramidal cells. The data in this repository was used to produce the [manuscript](https://doi.org/10.1101/2022.03.20.485046) of the [minis](https://github.com/dervinism/minis) software benchmarking study.

## Repository content
### recs
```recs``` folder holds data for all individual recordings in separate folders. Folders are named according to recording IDs: ```p103a```, ```p106b```, ```p108a```, ```p108b```, ```p108c```, ```p120b```, ```p122a```, ```p124b```, ```p125a```, ```p127c```, ```p128c```, ```p129a```, ```p131a```, ```p131c```. Recording IDs are formed by appending the animal ID with the slice ID letter. Each recording ID folder has the following structure:
![image](./images/folderStructureNew.png)

#### Test Condition File Naming
Files stored in folders ```abf```, ```abf_raw```, ```csv_MA```, ```csv_pC_raw```, ```mat_MA```, ```mat_MA_select```, ```mat_MA2```, ```mat_minis```, ```mat_minis_select```, ```mat_minis2```, ```mat_pC_raw```, ```mat_pC_raw_select```, and ```mat_pC_raw2``` correspond to individual testing conditions when part of their name contain the following characters:
- ```amp0p3_sAmp0p05_n500_<...>_noiseScaleFactor4p2```: 0.3 mV simulated EPSPs at 2.5 events/second with the noise scaling factor of 4.2.
- ```amp0p3_sAmp0p05_n500_<...>_noiseScaleFactor2p6```: 0.3 mV simulated EPSPs at 2.5 events/second with the noise scaling factor of 2.6.
- ```amp0p3_sAmp0p05_n500_<...>_noiseScaleFactor1p8```: 0.3 mV simulated EPSPs at 2.5 events/second with the noise scaling factor of 1.8.
- ```amp0p3_sAmp0p05_n500_<...>_noiseScaleFactor1p4```: 0.3 mV simulated EPSPs at 2.5 events/second with the noise scaling factor of 1.4.
- ```amp0p3_sAmp0p05_n500_<...>_noiseScaleFactor1p2```: 0.3 mV simulated EPSPs at 2.5 events/second with the noise scaling factor of 1.2.
- ```amp0p3_sAmp0p05_n500_<...>_noiseScaleFactor1```: 0.3 mV simulated EPSPs at 2.5 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp0p05_n1000_<...>_noiseScaleFactor1```: 0.3 mV simulated EPSPs at 5 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp0p05_n2000_<...>_noiseScaleFactor1```: 0.3 mV simulated EPSPs at 10 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp0p05_n4000_<...>_noiseScaleFactor1```: 0.3 mV simulated EPSPs at 20 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp0p05_n8000_<...>_noiseScaleFactor1```: 0.3 mV simulated EPSPs at 40 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp0p05_n1600_<...>_noiseScaleFactor1```: 0.3 mV simulated EPSPs at 80 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp0p05_n3200_<...>_noiseScaleFactor1```: 0.3 mV simulated EPSPs at 160 events/second with the noise scaling factor of.
- ```amp0p3_sAmp0p05_n6400_<...>_noiseScaleFactor1```: 0.3 mV simulated EPSPs at 320 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp0p05_n12800_<...>_noiseScaleFactor1```: 0.3 mV simulated EPSPs at 640 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp1e_09_n500_<...>_noiseScaleFactor1```: Varying amplitude simulated EPSPs at 13 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp1e_09_n625_<...>_noiseScaleFactor1``` or ```amp0p3_sAmp1e_09_n1250_<...>_noiseScaleFactor1```: Varying amplitude simulated EPSPs at 33 events/second with the noise scaling factor of 1.
- ```amp0p3_sAmp1e_09_n1000_<...>_noiseScaleFactor1``` or ```amp0p3_sAmp1e_09_n2000_<...>_noiseScaleFactor1```: Varying amplitude simulated EPSPs at 53 events/second with the noise scaling factor of 1.

#### Detection Performance Evaluation Analysis Output
Detection performance evaluation analysis output is produced separately for each testing condition and is saved in Matlab data files (MAT format) containing the following variables:
![image](./images/outputStructure.png)

### temps
Clampfit EPSP templates (Axon Text File format) used to detect simulated EPSPs and described in the benchmarking [manuscript](https://doi.org/10.1101/2022.03.20.485046).