Metadata-Version: 2.1
Name: methplotlib
Version: 0.4.0
Summary: Plot methylation data obtained from nanopolish
Home-page: https://github.com/wdecoster/methplotlib
Author: Wouter De Coster
Author-email: decosterwouter@gmail.com
License: MIT
Description: # METHPLOTLIB
        
        This script takes data from nanopolish, either as methylation calls or methylation frequencies (as processed by calculate_methylation_frequency.py) to generate a genome browser view on a window.
        
        ## INSTALLATION
        `pip install methplotlib`
        
        ## USAGE
        ```
        methplotlib [-h] -m METHYLATION [METHYLATION ...] -n NAMES [NAMES ...]
                           -w WINDOW [-g GTF] [--simplify] [--split] [--smooth SMOOTH]
        
        Arguments:
          -h, --help            show this help message and exit
          -m METHYLATION [METHYLATION ...], --methylation METHYLATION [METHYLATION ...]
                                nanoplish calls or frequency output
          -n NAMES [NAMES ...], --names NAMES [NAMES ...]
                                names of datasets in --methylation
          -w, --window WINDOW   window (region) to which the visualisation has to be restricted
          -g GTF, --gtf GTF     add annotation based on a gtf file
          --simplify            simplify annotation track to show genes rather than transcripts
          --split               split, rather than overlay the methylation tracks
          --smooth SMOOTH       Smoothen the datapoints, but reduce the details (integer, default=5)
        ```
        
        
        ## TO DO - CONTRIBUTIONS WELCOME
        - Differential methylation analysis (in windows) across groups of samples
        - Outlier detection (in windows) across samples
        
Keywords: nanopore
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: Intended Audience :: Science/Research
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: License :: OSI Approved :: MIT License
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.3
Classifier: Programming Language :: Python :: 3.4
Classifier: Programming Language :: Python :: 3.5
Requires-Python: >=3
Description-Content-Type: text/markdown
