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HEKA Patchmaster Importer

version 0.95.2 (24 KB) by Christian Keine
Matlab class to import HEKA Patchmaster files

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Updated 01 Feb 2019

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HEKA Patchmaster Importer

Class to import HEKA Patchmaster files into Matlab.
The core functionality is based on the HEKA importer from sigTool (https://doi.org/10.1016/j.neuron.2015.10.042 and https://github.com/irondukepublishing/sigTOOL) with modifications from Sammy Katta (https://github.com/sammykatta/Matlab-PatchMaster).

This stand-alone importer works independent of sigTool and will additionally extract the stimulus (reconstructed from the pgf) and solutions (when solution base was active during recording).

The recordings will be sorted into a table together with various parameters e.g series resistance (Rs), cell membrane capacitance (Cm), holding potential (Vhold), stimulus and solutions.
Note: Currently, not all possible stimuli are supported. If your stimulus contains ramps or alternating segments, it won't be reconstructed properly. However, it should work fine for most stimuli and support for new stimuli will be added in the future.

## How to use:

Add the folder "@HEKA_Importer" containing all the corresponding files to your Matlab directory.

**Input:**
- full file path and name of HEKA Patchmaster file that is to be loaded, e.g.
to load HEKA Patchmaster file "MyData.dat" located in "C:\PatchClamp\" run `HEKA_Importer('C:\PatchClamp\MyData.dat')`.

*Alternative:* run `HEKA_Importer.GUI` which will open the file dialog box from which the Patchmaster file can be selected.

**Output:**

Heka_Importer creates object containing the following properties:

- **trees**: structure containing the dataTree (from the .pul file), the stimTree (from the .pgf file) and solTree (from the .sol file). These tree structures are how HEKA saves the metadata for different recordings. For details on the HEKA file format check ftp://server.hekahome.de/pub/FileFormat/Patchmasterv9/.

- **opt**: structure containing different options when loading the file, currently it only contains the filepath of the HEKA Patchmaster file which was loaded and serves as placeholder for additional options in the future.

- **RecTable**: Matlab table containing the recordings and several parameters associated with them. Each row represents a different recording. The recorded data are stored in `RecTable.dataRaw` and sorted by channel within, e.g. `RecTable.dataRaw{1}{2}` contains all sweeps of the first series/recording for the second channel. The corresponding name of the channels is stored in `RecTable.chNames{1}`.

- **solutions**: Matlab table containing the solutions and composition (chemicals & concentration) used during the experiments. This table is read-out from the solTree of the HEKA Patchmaster file and requires that the recordings were associated with a solution base (otherwise this variable will be empty). The names of solutions correspond to the columns "ExternalSolution" and "InternalSolution" of the RecTable.

Cite As

Christian Keine (2019). HEKA Patchmaster Importer (https://www.github.com/ChristianKeine/HEKA_Patchmaster_Importer), GitHub. Retrieved .

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Updates

0.95.2

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0.95.1

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MATLAB Release Compatibility
Created with R2018b
Compatible with R2013b to any release
Platform Compatibility
Windows macOS Linux

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