jw156605 / MATCHER

MATCHER (Manifold Alignment to Characterize Experimental Relationships) is an approach for integrating single cell transcriptomic and epigenomic data. See Welch et al. (2017) for more details: https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1269-0

MATCHER - Manifold Alignment to Characterize Experimental Relationships

Installation

MATCHER is on the Python package index (PyPI). To install it using pip, simply type:

    pip install pymatcher

MATCHER Input

MATCHER takes in single cell datasets as Numpy ndarrays (produced by the genfromtxt function in the Numpy package, for example). Each row should contain the measured values for a single cell, and each column should contain the values of a feature across cells. See the sample data files and the Jupyter notebook included with the package for more details.

MATCHER Documentation

Detailed documentation for MATCHER code is available at https://pythonhosted.org/pymatcher/.