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        "description": "# msalign - signal calibration and alignment\n\n[![Build Status](https://travis-ci.com/lukasz-migas/msalign.svg?branch=master)](https://travis-ci.com/lukasz-migas/msalign)\n[![CircleCI](https://circleci.com/gh/lukasz-migas/msalign.svg?style=svg)](https://circleci.com/gh/lukasz-migas/msalign)\n[![Build status](https://ci.appveyor.com/api/projects/status/0qwrkq86qg24y5un?svg=true)](https://ci.appveyor.com/project/lukasz-migas/msalign)\n[![codecov](https://codecov.io/gh/lukasz-migas/msalign/branch/master/graph/badge.svg)](https://codecov.io/gh/lukasz-migas/msalign)\n[![Requirements Status](https://requires.io/github/lukasz-migas/msalign/requirements.svg?branch=master)](https://requires.io/github/lukasz-migas/msalign/requirements/?branch=master)\n[![CodeFactor](https://www.codefactor.io/repository/github/lukasz-migas/msalign/badge)](https://www.codefactor.io/repository/github/lukasz-migas/msalign)\n[![Netlify Status](https://api.netlify.com/api/v1/badges/921b7fdf-99e2-4019-84a0-3ad61729f2cc/deploy-status)](https://app.netlify.com/sites/msalign/deploys)\n\n[![Wheel](https://img.shields.io/pypi/wheel/msalign.svg)](https://pypi.org/project/msalign/)\n[![PyPI](https://img.shields.io/pypi/v/msalign.svg)](https://pypi.org/project/msalign/)\n[![Versions](https://img.shields.io/pypi/pyversions/msalign.svg)](https://pypi.org/project/msalign/)\n[![Downloads](https://pepy.tech/badge/msalign)](https://pepy.tech/project/msalign)\n\nThis package was inspired by MATLAB's [msalign](https://mathworks.com/help/bioinfo/ref/msalign.html) function which\nallows alignment of multiple signals to reference peaks.\n\n## Installation\n\n```python\npip install msalign\n```\n\nor\n\n```python\npip install git+https://github.com/lukasz-migas/msalign.git\n```\n\n## Usage\n\nUsage is relatively straightforward. Simply import the function `msalign` from the package and provide `xvals`, `zvals`\nand `peaks`. Other parameters can be passed-in using `kwargs`.\n\n```python\nimport numpy as np\nfrom msalign import msalign\n\n\nfname = r\"./example_data/msalign_test_data.csv\"\ndata = np.genfromtxt(fname, delimiter=\",\")\nxvals = data[1:, 0]\nzvals = data[1:, 1:].T\n\npeaks = [3991.4, 4598, 7964, 9160]\nkwargs = dict(\n    iterations=5,\n    weights=[60, 100, 60, 100],\n    resolution=100,\n    grid_steps=20,\n    ratio=2.5,\n    shift_range=[-100, 100],\n    )\n\nzvals_new = msalign(xvals, zvals, peaks, **kwargs)\n```\n\n## Reference\n\nMonchamp, P., Andrade-Cetto, L., Zhang, J.Y., and Henson, R. (2007) Signal Processing Methods for Mass\nSpectrometry. In Systems Bioinformatics: An Engineering Case-Based Approach, G. Alterovitz and M.F. Ramoni, eds.\nArtech House Publishers).\n\n[MATLAB's msalign](https://mathworks.com/help/bioinfo/ref/msalign.html)\n\n\n",
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