Metadata-Version: 2.1
Name: nPYc
Version: 1.1.2
Summary: National Phenome Centre toolbox
Home-page: https://github.com/phenomecentre/npyc-toolbox
Author: National Phenome Centre
Author-email: phenomecentre@imperial.ac.uk
License: MIT
Platform: UNKNOWN
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3.6
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
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Requires-Dist: isaExplorer (>=0.1)
Requires-Dist: isatools (>=0.9.3)
Requires-Dist: Jinja2 (>=2.10)
Requires-Dist: lmfit (>=0.9.7)
Requires-Dist: matplotlib (>=2.2.2)
Requires-Dist: networkx (>=2.1)
Requires-Dist: numpy (>=1.14.2)
Requires-Dist: pandas (>=0.23.0)
Requires-Dist: plotly (>=2.2.2)
Requires-Dist: pyChemometrics (>=0.1)
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Requires-Dist: scipy (>=1.1.0)
Requires-Dist: seaborn (>=0.8.1)
Requires-Dist: setuptools (>=39.1.0)
Requires-Dist: statsmodels (>=0.9.0)

Toolbox for preprocessing of metabolic profiling datasets
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.. image:: https://travis-ci.org/phenomecentre/nPYc-Toolbox.svg?branch=master
   :target: https://travis-ci.org/phenomecentre/nPYc-Toolbox
   :alt: Travis CI build status

.. image:: https://readthedocs.org/projects/npyc-toolbox/badge/?version=latest
   :target: http://npyc-toolbox.readthedocs.io/en/latest/?badge=latest
   :alt: Documentation Status

.. image:: https://codecov.io/gh/phenomecentre/nPYc-Toolbox/branch/master/graph/badge.svg
   :target: https://codecov.io/gh/phenomecentre/nPYc-Toolbox
   :alt: Test coverage

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The nPYc toolbox offers functions for the import, preprocessing, and QC of metabolic profiling datasets.

Documentation can be found on `Read the Docs <http://npyc-toolbox.readthedocs.io/en/latest/?badge=latest>`_.

Imports
 - Peak-picked LC-MS data (XCMS, Progenesis QI, *&* Metaboscape)
 - Raw NMR spectra (Bruker format)
 - Targeted datasets (TargetLynx, Bruker BI-LISA, *&* BI-Quant-Ur)

Provides
 - Batch *&* drift correction for LC-MS datasets
 - Feature filtering by RSD *&* linearity of response
 - Calculation of spectral line-width in NMR
 - PCA of datasets
 - Visualisation of datasets

Exports
 - Basic tabular csv
 - `ISA-TAB <http://isa-tools.org>`_

The nPYc toolbox is `developed <https://github.com/phenomecentre/npyc-toolbox>`_ by the informatics team at `The National Phenome Centre <http://phenomecentre.org/>`_ at `Imperial College London <http://imperial.ac.uk/>`_.


