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.
Quickstart
Install or upgrade pyABF:
pip install --upgrade pyabfAccess ABF sweep data:
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:
import pyabf
import matplotlib.pyplot as plt
abf = pyabf.ABF("demo.abf")
abf.setSweep(14)
plt.plot(abf.sweepX, abf.sweepY)
plt.show()
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/
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Release files for pyabf 2.3.8
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| pyabf-2.3.8.tar.gz | 44.2 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| pyabf-2.3.8-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 97.2 kB
Release files / pyabf-2.3.8.tar.gz
| Download URL | pyabf-2.3.8.tar.gz |
|---|---|
| Size | 44.2 kB |
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| Size | 53.0 kB |
| Tags | Python 3 |
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