nPYc 1.2.6

National Phenome Centre toolbox

Toolbox for preprocessing of metabolic profiling datasets

.. 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

|

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/>_.