Metadata-Version: 1.1
Name: scikit-tracker
Version: 0.2
Summary: Object detection and tracking for cell biology
Home-page: http://bnoi.github.io/scikit-tracker
Author: Guillaume Gay and Hadrien Mary
Author-email: gllm.gay@gmail.com
License: BSD 3-Clause
Download-URL: https://github.com/bnoi/scikit-tracker
Description: # Objects detection and robust tracking for cell biology
        
        [![Build Status](https://travis-ci.org/bnoi/scikit-tracker.png?branch=master)](https://travis-ci.org/bnoi/scikit-tracker)
        
        **scikit-tracker** aims to be a robust Python library to work with cell biology microscopy images. [OME XML and OME Tiff](https://www.openmicroscopy.org/site/support/ome-model/ome-tiff/) are supported to handle input/output to the lib. The two main goals of the library is to implement **detection** and **tracking** algorithms relevant to analyse biological microscopy dataset.
        
        Several algorithms are featured and it is planned to add others:
        
        - Gaussian peak detection by deflation loop : [Segré et al. Nature Methods (2008)](http://www.nature.com/nmeth/journal/v5/n8/full/nmeth.1233.html)
        
        - Cell boundary detection with bright field depth fitting : [Julou, T., PNAS, (2013)](http://www.pnas.org/content/early/2013/07/10/1301428110)
        
        - Cell nucleus segmentation : by Guillaume Gay
        
        - Lap Tracker, a robust single-particle tracking : [K. Jaqaman and G. Danuser, Nature Methods, 2008](http://www.nature.com/nmeth/journal/v5/n8/full/nmeth.1237.html). The version implemented in **scikit-tracker** is a slightly modified version from the original to allow easy, flexible and yet powerfull parameters adjustements with custom cost function.
        
        ## Warning
        
        **scikit-tracker** is in very early stage development. API is still highly instable and you should not use it in production. However any kind of contributions is welcome. We hope to provide soon a 0.2 release with main features working and stable.
        
        ## Documentation
        
        Current stable version is v0.2.
        
        - Stable version : http://bnoi.github.io/scikit-tracker/stable
        - Dev version : http://bnoi.github.io/scikit-tracker/dev
        
        ## Dependencies
        
        - Python >= 3.3
        - numpy >= 1.8
        - scipy >= 0.12
        - pandas >= 0.13
        - scikit-image >= 0.9
        - scikit-learn >= 0.13
        
        ### Optional
        
        - matplotlib >= 1.3
        
        ### For developers
        
        - nose >= 1.3
        - sphinx >= 1.2
        - coverage >= 3.7
        
        ## Installation
        
        You can install scikit-tracker using pip:
        
            $ pip install scikit-tracker
        
        Or by cloning this repo and using setup.py:
        
            $ git clone git@github.com:bnoi/scikit-tracker.git
            $ python setup.py install
        
        ## Authors
        
        - Guillaume Gay : gllm.gay@gmail.com
        - Hadrien Mary : hadrien.mary@gmail.com
        
        ## Licence
        
        See [LICENSE](LICENSE).
        
Platform: UNKNOWN
Classifier: Development Status :: 2 - Pre-Alpha
Classifier: Environment :: Console
Classifier: Intended Audience :: Developers
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: BSD License
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3
Classifier: Topic :: Scientific/Engineering
Classifier: Operating System :: Microsoft :: Windows
Classifier: Operating System :: POSIX
Classifier: Operating System :: Unix
Classifier: Operating System :: MacOS
