Metadata-Version: 2.1
Name: ann-gsea
Version: 0.0.0
Summary: ann-gsea - integrate GSEA molecular signatures with AnnData
Home-page: UNKNOWN
Author: Michael E. Vinyard - Harvard University - Massachussetts General Hospital - Broad Institute of MIT and Harvard
Author-email: mvinyard@broadinstitute.org
License: MIT
Description: # annsig
        An API for annotating single-cell AnnData with Molecular Signatures from [MSigDB](https://www.gsea-msigdb.org/gsea/msigdb/)
        
        To use: 
        
        ### Step 1. Install
        
        To install with the latest release from **PYPI**:
        ```BASH
        pip install annsig
        ```
        
        alternatively, install the development version:
        ```BASH
        git clone https://github.com/mvinyard/annsig
        
        cd annsig; pip install -e .
        ```
        
        ### Step 2. Register and download MSigDB
        
        [link](http://www.gsea-msigdb.org/gsea/downloads.jsp#msigdb)
        Developed with: `"msigdb.v7.4.symbols.gmt"` (Currently the latest version)
        
        ### Step 3. Example usage
        
        ```python
        import ann_gsea as gsea
        
        db = gsea.MSigDB()
        db.load()
        ```
        
        ```python
        db.search()
        ```
        
        ```python
        db.fetch()
        ```
        
        [link](http://www.gsea-msigdb.org/gsea/downloads.jsp#msigdb)
        Developed with: `"msigdb.v7.4.symbols.gmt"` (Currently the latest version)
        
        **Instructions from the MSigDB website on how to cite their resource**:
        
        >To cite your use of the Molecular Signatures Database (MSigDB), a joint project of UC San Diego and Broad Institute, please reference Subramanian, Tamayo, et al. (2005, PNAS) and one or more of the following as appropriate: Liberzon, et al. (2011, Bioinformatics), Liberzon, et al. (2015, Cell Systems), and also the source for the gene set as listed on the gene set page.
        
Platform: UNKNOWN
Classifier: Development Status :: 2 - Pre-Alpha
Classifier: Programming Language :: Python :: 3.6
Classifier: Intended Audience :: Science/Research
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Python: >3.6.0
Description-Content-Type: text/markdown
