| Name | neurocarto JSON |
| Version |
0.0.3
JSON |
| download |
| home_page | None |
| Summary | A web-interface channelmap editor for Neuropixels probe familiy |
| upload_time | 2024-08-23 10:22:46 |
| maintainer | None |
| docs_url | None |
| author | None |
| requires_python | >=3.10 |
| license | BSD 3-Clause License Copyright (c) 2023, AntonioST Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: 1. Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. 2. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. 3. Neither the name of the copyright holder nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. |
| keywords |
electrophysiology
neuropixels
channelmap
|
| VCS |
 |
| bugtrack_url |
|
| requirements |
No requirements were recorded.
|
| Travis-CI |
No Travis.
|
| coveralls test coverage |
No coveralls.
|
NeuroCarto: A Neuropixels Channelmap Editor
===========================================
[](https://pypi.org/project/neurocarto/)
[](https://neurocarto.readthedocs.io/en/latest/?badge=latest)
NeuroCarto is a neural probe channel map editor for the Neuropixels probe family.
It allows user to create a blueprint for arranging electrodes in a desired density
and generate a custom channel map.
Features
--------
- Read/Visualize/Modify/Write Neuropixels channelmap files (`*.imro`).
- Read SpikeGLX meta file (`*.meta`).
- Read/Visualize/Modify/Write Blueprint (a blueprint for generating a channelmap by a programming way).
- Show Atlas mouse brain as a background image.
- Customize electrode selection and probe kind.
- Show channel efficiency and electrode density.
Relevant Papers
---------------
writing.
Documents
---------
Please check [Documentation](https://neurocarto.readthedocs.io/en/latest/) for more details.
Install and Run
---------------
### prepare environment.
Require `Python 3.10`.
### Install
```shell
pip install neurocarto
```
### Run
```shell
neurocarto
```
### Optional dependency
* `bg-atlasapi` Atlas Brain background image supporting.
* `Pillow`, `tifffile` other background image format supporting.
* `probeinterface` probe/channelmap format import/export
* `pandas`, `polars` channelmap data export.
Full optional dependencies are list in [requirements-opt.txt](requirements-opt.txt).
Build from source
-----------------
Please check [install](https://github.com/AntonioST/chmap_editor/wiki/install) page in wiki.
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