msalign - signal calibration and alignment
This package was inspired by MATLAB's msalign function which allows alignment of multiple signals to reference peaks.
Installation
Install from PyPi
pip install msalign
Install directly from GitHub
pip install -e git+https://github.com/lukasz-migas/msalign.git
Install in development mode
python setup.py develop
Usage
Usage is relatively straightforward. Simply import msalign from the package and provide x, array
and peaks values. msalign accepts a lot of other parameters that might improve your alignment - simply provide them
as keyword parameters.
import numpy as np
from msalign import msalign
filename = r"./example_data/msalign_test_data.csv"
data = np.genfromtxt(filename, delimiter=",")
x = data[1:, 0]
array = data[1:, 1:].T
peaks = [3991.4, 4598, 7964, 9160]
aligned = msalign(x, array, peaks, weights=[60, 100, 60, 100], only_shift=False)
Zoom-in on each peak the spectrum was aligned against
Reference
Monchamp, P., Andrade-Cetto, L., Zhang, J.Y., and Henson, R. (2007) Signal Processing Methods for Mass Spectrometry. In Systems Bioinformatics: An Engineering Case-Based Approach, G. Alterovitz and M.F. Ramoni, eds. Artech House Publishers).
1 maintainer
Metadata
1 maintainer
Release files for msalign 0.2.0
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| File | Size | Uploaded | Provenance | Actions |
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| File | Interpreter | ABI | Platform | Actions Reset |
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| msalign-0.2.0-py2.py3-none-any.whl | Python 2, Python 3 | none | any | Details for msalign-0.2.0-py2.py3-none-any.whl |
Total release size: 36.0 kB
Release files / msalign-0.2.0.tar.gz
| Download URL | msalign-0.2.0.tar.gz |
|---|---|
| Size | 18.5 kB |
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Release files / msalign-0.2.0-py2.py3-none-any.whl
| Download URL | msalign-0.2.0-py2.py3-none-any.whl |
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| Size | 17.5 kB |
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