Metadata-Version: 2.1
Name: whatshap
Version: 0.18
Summary: phase genomic variants using DNA sequencing reads
Home-page: https://bitbucket.org/whatshap/whatshap/
Author: WhatsHap authors
Author-email: whatshap@cwi.nl
License: MIT
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        WhatsHap
        ========
        
        WhatsHap is a software for phasing genomic variants using DNA sequencing
        reads, also called *read-based phasing* or *haplotype assembly*. It is
        especially suitable for long reads, but works also well with short reads.
        
        Please :ref:`cite us if you use WhatsHap <howtocite>`.
        
        
        Features
        ========
        
          * Very accurate results (Martin et al.,
            `WhatsHap: fast and accurate read-based phasing <https://doi.org/10.1101/085050>`_)
          * Works well with Illumina, PacBio, Oxford Nanopore and other types of reads
          * It phases SNVs, indels and even “complex” variants (such as ``TCG`` → ``AGAA``)
          * Pedigree phasing mode uses reads from related individuals (such as trios)
            to improve results and to reduce coverage requirements
            (Garg et al., `Read-Based Phasing of Related Individuals <https://doi.org/10.1093/bioinformatics/btw276>`_).
          * WhatsHap is :ref:`easy to install <installation>`
          * It is :ref:`easy to use <user-guide>`: Pass in a VCF and one or more BAM files, get out a phased VCF.
            Supports multi-sample VCFs.
          * It produces standard-compliant VCF output by default
          * If desired, get output that is compatible with ReadBackedPhasing
          * Open Source (MIT license)
        
        
        Documentation
        -------------
        
        * `Bitbucket page <https://bitbucket.org/whatshap/whatshap/>`_
        * `Read the documentation online <https://whatshap.readthedocs.io/>`_.
          Offline documentation is available in the ``doc/`` subdirectory in the
          repository and in the downloaded tar distribution.
        
        
        Mailing list
        ------------
        We run a `public mailing list <https://lists.cwi.nl/mailman/listinfo/whatshap>`_. Please
        don't hesitate to post questions and comments.
        
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: Environment :: Console
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: MIT License
Classifier: Natural Language :: English
Classifier: Programming Language :: Cython
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Python: >=3.4
Description-Content-Type: text/x-rst
Provides-Extra: dev
