Ecosyste.ms: Awesome
An open API service indexing awesome lists of open source software.
https://github.com/alleninstitute/mies
Multichannel Igor Electrophysiology Suite
https://github.com/alleninstitute/mies
electrophysiology igor-pro supported
Last synced: 25 days ago
JSON representation
Multichannel Igor Electrophysiology Suite
- Host: GitHub
- URL: https://github.com/alleninstitute/mies
- Owner: AllenInstitute
- License: other
- Created: 2018-05-15T19:06:54.000Z (over 6 years ago)
- Default Branch: main
- Last Pushed: 2024-06-11T16:37:55.000Z (7 months ago)
- Last Synced: 2024-06-11T17:01:49.307Z (7 months ago)
- Topics: electrophysiology, igor-pro, supported
- Language: IGOR Pro
- Homepage: https://alleninstitute.github.io/MIES/user.html
- Size: 426 MB
- Stars: 20
- Watchers: 9
- Forks: 6
- Open Issues: 275
-
Metadata Files:
- Readme: README.md
- Contributing: CONTRIBUTING.md
- License: LICENSE
- Codeowners: CODEOWNERS
Awesome Lists containing this project
README
[](https://github.com/AllenInstitute/MIES/releases)
[](https://github.com/AllenInstitute/MIES/actions/workflows/build-release.yml)
[](https://alleninstitute.github.io/MIES/user.html)
[](https://alleninstitute.github.io/MIES/developers.html#signed-installer)
[](https://byte-physics.de/public-downloads/aistorage/transfer/report/coverage/)
[](https://github.com/pre-commit/pre-commit)
[](https://github.com/AllenInstitute/MIES/graphs/contributors)
## Multichannel Igor Electrophysiology Suite
The Multichannel Igor Electrophysiology Suite (MIES) is a proven sweep based data acquisition
software package for [intracellular electrophysiology](https://en.wikipedia.org/wiki/Electrophysiology#Intracellular_recording) (patch clamp) \[[1](https://www.science.org/stoken/author-tokens/ST-374/full),
[2](https://doi.org/10.1038/s41586-021-03813-8),
[3](https://doi.org/10.1038/s41593-019-0417-0),
[4](https://elifesciences.org/articles/37349),
[5](https://doi.org/10.1038/s41586-021-03813-8),
[6](https://doi.org/10.7554/eLife.65482)\].
It offers top of its class flexibility and robustness for stimulus generation, data
acquisition, and analysis.
## Highlights
- Run up to five DACs in parallel for scalable data acquisition.
- Acquire data on up to eight headstage on a single DAC to probe up to 56 connections at once.
- Create arbitrarily complex stimulus sets with an intuitive GUI.
- Export all data, including all of its metadata, into the industry-standard [NWBv2-format](https://doi.org/10.1101/523035) and read it back in
- Run custom code during data acquisition for Automatic Experiment Control and real-time adaptability.
- Automate experimental setup using configuration files for streamlined workflows.
- Interact with MIES from other programming languages (Python, C++, Javascript, ...) through [ZeroMQ](https://zeromq.org/).
- Track and manage your experiments with comprehensive metadata acquisition and browsing tools.
- Leverage the integrated scripting language for flexible, on-the-fly electrophysiology data evaluation.
- Ensure compatibility with every earlier version of MIES, protecting your previous work and workflows.
## Getting started
- Download the [latest release](https://github.com/AllenInstitute/MIES/releases/tag/latest)
- Windows: Run the installer
- MacOSX (analysis only): [Manual installation](https://alleninstitute.github.io/MIES/installation.html#manual-installation)
- View the [documentation](https://alleninstitute.github.io/MIES/user.html)
### Brief visual overview
### Postsynaptic data analysis
[](https://www.youtube.com/watch?v=O2WxPzBsEfc)
Video tutorial of the postsynaptic potential/postsynaptic current data (PSX) analysis module
## Required Software
- [Igor Pro 9 (nightly) or later](https://alleninstitute.github.io/MIES/installation.html#igor-pro-update-nightly)
### For Data Analysis
- Windows 10 64-bit or MacOSX 10.10
### For Data Acquisition
- Windows 10 64-bit
- [NIDAQ MX XOP](https://www.wavemetrics.com/products/nidaqtools/nidaqtools.htm)
## Supported Hardware
- Digital to analog converters (DAC):
- National Instruments:
- [PCIe-6341](https://www.ni.com/de-de/support/model.pcie-6341.html)
- [PCIe-6343](https://www.ni.com/en-us/support/model.pcie-6343.html)
- [PXI-6259](https://www.ni.com/en-us/support/model.pxi-6259.html)
- [USB-6346](https://www.ni.com/de-de/support/model.usb-6346.html)
Other NI hardware models can be added on request. Please open an issue from within MIES,
`MIES Panels->Report an issue`, for that.
- Instrutech/HEKA ITC:
- [16](http://www.heka.com/downloads/hardware/manual/itc16.pdf)
- [18](http://www.heka.com/downloads/hardware/manual/m_itc18.pdf)
- [1600](http://www.heka.com/downloads/hardware/manual/m_itc1600.pdf)
ITC devices are at the End-Of-Service-Life (EOSL). National Instruments DACs are recommended for MIES users looking for new hardware.
- Amplifier: Molecular Devices [700B](https://www.moleculardevices.com/products/axon-patch-clamp-system/amplifiers/axon-instruments-patch-clamp-amplifiers)
- Pressure control (optional):
- [QPV High Resolution Pressure Regulator](https://proportionair.com/product/qpv/) from Proportion-Air, Inc.; Part name: QPV regulator (custom, see part No), -10 psi to +10 psi; Part no.: QPV1TBNEEN10P10PSGAXLDD
- controlled through ITC 18/1600 or National Instruments [USB 6001](https://www.ni.com/en-us/support/model.usb-6001.html)
## Support statement
The last released version receives fixes for all critical bugs.
## Bug reporting
[Report a Bug](https://alleninstitute.github.io/MIES/reportingbugs.html)