Metadata-Version: 2.1
Name: xclone
Version: 0.3.0
Summary: Inference of clonal Copy Number Variation in single cells
Home-page: https://github.com/Rongtingting/XClone
Author: Rongting Huang
Author-email: rthuang@connect.hku.hk
License: Apache-2.0
Description: ======
        XClone
        ======
        
        Inference of Clonal Copy Number Variation in Single Cells
        
        XClone is an algorithm to infer allele- and haplotype-specific copy numbers 
        in individual cells from low-coverage and sparse single-cell RNA sequencing data 
        (e.g., those generated by 10x Genomics, Smart-seq, etc.). 
        The full description of the algorithm and its application on published cancer datasets are described in
        
        [full-text](link here)
        
        The demo of XClone and results on the 3 processed cancer datasets are available at
        [xclone-data](https://github.com/Rongtingting/xclone-data)
        
        
        Please frequently read Development and keep software up to date since XClone is being updated 
        and improved frequently at this stage.
        
        .. image:: ./docs/image/XClone_overview.png
        
        Installation
        ============
        
        Preprocessing via xcltk 
        -----------------------
        
        xcltk is a toolkit for XClone preprocessing.
        xcltk is avaliable through pypi. To install, type the following command line, and add -U for upgrading::
        
            pip install -U xcltk
        
        Alternatively, you can install from this GitHub repository for latest (often development) version by following command line::
        
            pip install -U git+https://github.com/hxj5/xcltk
        
        
        
        Main Module
        -----------
        
        XClone requires Python 3.7 or later. 
        We recommend to use Anaconda environment for version control and to avoid potential conflicts::
        
            conda create -n xclone python=3.7
            conda activate xclone
        
        XClone package can be installed  directly from GitHub repository (for development version)::
        
            pip install git+https://github.com/single-cell-genetics/XClone
        
Keywords: Copy Number Variation,allelic expression,single-cell RNA-seq,variantional inference
Platform: UNKNOWN
Provides-Extra: docs
