https://github.com/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
https://github.com/jw156605/MATCHER

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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

• Host: GitHub
• URL: https://github.com/jw156605/MATCHER
• Owner: jw156605
• License: mit
• Created: 2017-06-15T21:21:48.000Z (about 7 years ago)
• Default Branch: master
• Last Pushed: 2017-06-16T19:47:49.000Z (about 7 years ago)
• Last Synced: 2024-02-27T23:23:37.299Z (4 months ago)
• Language: Jupyter Notebook
• Homepage:
• Size: 6.6 MB
• Stars: 20
• Watchers: 4
• Forks: 5
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE.txt

Lists

• awesome-single-cell - MATCHER - [python] - [MATCHER: An algorithm for integrating single cell transcriptomic and epigenomic data using manifold alignment. MATCHER takes multiple types of single cell measurements performed on distinct single cells and infers single cell multi-omic profiles.](https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1269-0) (Software packages / Multi-assay data integration)
• awesome-single-cell - MATCHER - [python] - [MATCHER: An algorithm for integrating single cell transcriptomic and epigenomic data using manifold alignment. MATCHER takes multiple types of single cell measurements performed on distinct single cells and infers single cell multi-omic profiles.](https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1269-0) (Software packages / Multi-assay data integration)
• awesome_single_cell - MATCHER - [python] - [MATCHER: An algorithm for integrating single cell transcriptomic and epigenomic data using manifold alignment. MATCHER takes multiple types of single cell measurements performed on distinct single cells and infers single cell multi-omic profiles.](https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1269-0) (Software packages / Multi-assay data integration)

README

        
# 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](https://github.com/jw156605/MATCHER/blob/master/MATCHER_demo.ipynb) included with the package for more details.

**MATCHER Documentation**

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

[![DOI](https://zenodo.org/badge/94479837.svg)](https://zenodo.org/badge/latestdoi/94479837)