Metadata-Version: 2.1
Name: wishbone-dev
Version: 0.5.2
Summary: Wishbone algorithm for identifying bifurcating trajectories from single-cell data
Home-page: UNKNOWN
Author: Manu Setty
Author-email: manu.talanki@gmail.com
License: UNKNOWN
Description: Wishbone 
        --------
        
        Wishbone is an algorithm to align single cells from differentiation systems with bifurcating branches. Wishbone has been designed to work 
        with multidimensional single cell data from diverse technologies such as Mass cytometry and single cell RNA-seq. 
        
        #### Installation and dependencies
        1. Wishbone has been implemented in Python3 and can be installed using
        
                $> pip install wishbone_dev
        
        2. Wishbone depends on a number of `python3` packages available on pypi and these dependencies are listed in `setup.py`
        All the dependencies will be automatically installed using the above commands
        
        #### Usage
        
        ##### Command line
        A tutorial on Wishbone usage and results visualization for single cell RNA-seq data can be found in this notebook: http://nbviewer.jupyter.org/github/ManuSetty/wishbone/blob/master/notebooks/Wishbone_for_single_cell_RNAseq.ipynb
        
        
        A tutorial on Wishbone usage and results visualization for mass cytometry data can be found in this notebook: http://nbviewer.jupyter.org/github/ManuSetty/wishbone/blob/master/notebooks/Wishbone_for_mass_cytometry.ipynb
        
        
        ##### GUI
        A python GUI is now available for Wishbone. After following the installation steps listed below, the GUI can be invoked using
        
                $> wishbone_gui.py
        
        A tutorial on using the interface is available in the [Wishbone tutorial](docs/wishbone_tutorial.pptx).
        
        
        #### Citation
        
        Wishbone manuscript is available from [Nature Biotechnology](http://www.nature.com/nbt/journal/vaop/ncurrent/full/nbt.3569.html). If you use Wishbone for your work, please cite our paper.
        
                @article{Wishbone_2016,
                        title = {Wishbone identifies bifurcating developmental trajectories from single-cell data},
                        author = {Manu Setty and Michelle D Tadmor and Shlomit Reich-Zeliger and Omer Angel and Tomer Meir Salame and Pooja Kathail and Kristy Choi and Sean Bendall and Nir Friedman and Dana Pe'er},
                        journal = {Nature Biotechnology},
                        year = {2016},
                        month = {may},
                        url = {http://dx.doi.org/10.1038/nbt.3569},
                        doi = {doi:10.1038/nbt.3569}
                }
                        
        
Platform: UNKNOWN
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Classifier: Operating System :: POSIX :: Linux
Classifier: Development Status :: 5 - Production/Stable
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Topic :: Scientific/Engineering :: Visualization
Requires-Python: >=3.6
Description-Content-Type: text/markdown
