README ¶
This repository contains a Python library for processing imaging mass spectrometry data.
See the documentation on readthedocs
Installation¶
- Dependancies:
- numpy
- scipy
- pyMS
- pyimzML
- install this branch with pip
sudo pip install git+https://github.com/alexandrovteam/pyImagingMSpec@adp
Package Contents¶
This library is currently includes
- data container class for a imaging mass spectrum
- tools for normalising imaging mass spectrometry data
- data container class for ion images
- tools for processing ion images
- some preliminary implementations of data converation utilities
Processing a dataset¶
- Data should be in .imzml format
Who do I talk to?¶
If you’re having difficulty running the pipeline get in touch with http://www.embl.de/research/units/scb/alexandrov/