{"repo":"shuxiaoc/mario-py","free":true,"listed":false,"github":"https://github.com/shuxiaoc/mario-py","clone":"git clone https://github.com/shuxiaoc/mario-py.git","description":"MARIO: single-cell proteomic data matching and integration using both shared and distinct features","language":"Jupyter Notebook","stars":24,"topics":["single-cell","data-integration","matching"],"license":null,"category":"data-pipelines","readme_excerpt":"MARIO: single-cell proteomic data matching and integration pipeline Description This github repo includes mario-py and mario-R , which is a Python package for matching and integrating multi-modal single cell data with partially overlapping features. The method is specifically tailored toward proteomic datasets, and for detailed description on the algorithm, including the core methodology, mathmetical ingredients, application on various biological samples, and extensive benchmarking, please refer to the paper. This work has been lead by Shuxiao Chen from Zongming Lab @Upenn and Bokai Zhu from Nolan lab @Stanford. Getting Started Dependencies For easy usage, we suggest builing a virtualenv with . Installing To install , we can easily install it with function (package name ): How to use Quick example: To use in in : Where and are two dataframes for match and integration, with row as cells, columns as features. Remember for shared features, the column names should be identical. Input list can be multiple dataframes, as accomodates for multiple dataset match and integration. The result contains the a matching list (matching), and a embedding list (integration). For detailed usage please refer to the Full tutorial section. Similarly, to use in in (with package ) : Where the result also contains the matching list and embedding list. Full tutorial: For step by step tutorials on how to use , with fine-tuned parameters for optimal results and full functionality, please refer to the doc","default_branch":null,"files":null,"tree":[],"storefront":"/r/shuxiaoc","claimed":false,"request_supported":{"post":"https://gitbuyer.com/r/shuxiaoc/mario-py/request-supported","requests":0},"note":"indexed from public GitHub; nothing is for sale on this page. Clone it from GitHub. Paid listings live at /search."}