| Name | pyabf JSON |
| Version |
2.3.8
JSON |
| download |
| home_page | http://swharden.com/pyabf |
| Summary | Python library for reading files in Axon Binary Format (ABF) |
| upload_time | 2023-08-02 23:21:56 |
| maintainer | |
| docs_url | None |
| author | Scott W Harden |
| requires_python | >=3.8 |
| license | MIT License |
| keywords |
|
| VCS |
 |
| bugtrack_url |
|
| requirements |
No requirements were recorded.
|
| Travis-CI |
No Travis.
|
| coveralls test coverage |
No coveralls.
|
pyABF: a pure-Python ABF file reader
====================================
**pyABF** provides a Python interface to electrophysiology files in the Axon Binary Format (ABF).
pyABF supports Python 3 and does not use obscure libraries (just numpy and matplotlib).
pyABF supports reading ABF1 and ABF2 files and can write ABF1 files.
.. class:: no-web
.. image:: http://swharden.com/pyabf/graphics/action-potentials-small.png
:alt: pyABF electrophysiology data analysis with Python and Matplotlib
:align: center
Quickstart
==========
Install or upgrade pyABF:
.. code-block:: bash
pip install --upgrade pyabf
|
Access ABF sweep data:
.. code-block:: python
import pyabf
abf = pyabf.ABF("demo.abf")
abf.setSweep(sweepNumber=3, channel=0)
print(abf.sweepY) # displays sweep data (ADC)
print(abf.sweepX) # displays sweep times (seconds)
print(abf.sweepC) # displays command waveform (DAC)
|
Plot a sweep with Matplotlib:
.. code-block:: python
import pyabf
import matplotlib.pyplot as plt
abf = pyabf.ABF("demo.abf")
abf.setSweep(14)
plt.plot(abf.sweepX, abf.sweepY)
plt.show()
.. class:: no-web
.. image:: http://swharden.com/pyabf/graphics/pyabf-example-sweep.jpg
:alt: pyABF Example
:align: center
|
Additional Examples
===================
Full pyabf API documentation, additional code examples, a pyabf cookbook,
and low-level information about the ABF file format can be found at the pyABF
project homepage: http://swharden.com/pyabf/
.. class:: no-web
.. image:: http://swharden.com/pyabf/graphics/pyabf-example-action-potentials.jpg
:alt: pyABF Example
:align: center
|
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