Metadata-Version: 2.1
Name: mg-toolkit
Version: 0.3.1
Summary: Metagenomics toolkit
Home-page: https://github.com/EBI-metagenomics/emg-toolkit
Author: Ola Tarkowska
Author-email: olat@ebi.ac.uk
License: Apache Software License
Description: [![Build Status](https://travis-ci.org/EBI-Metagenomics/emg-toolkit.svg?branch=master)](https://travis-ci.org/EBI-Metagenomics/emg-toolkit) [![PyPi package](https://badge.fury.io/py/mg-toolkit.svg)](https://badge.fury.io/py/mg-toolkit) [![Downloads](http://pepy.tech/badge/mg-toolkit)](http://pepy.tech/project/mg-toolkit)
        
        
        Metagenomics toolkit enables scientists to download all of the sample
        metadata for a given study or sequence to a single csv file.
        
        
        Install metagenomics toolkit
        ============================
        
            pip install -U mg-toolkit
        
        
        Usage
        =====
        
            $ mg-toolkit -h
            usage: mg-toolkit [-h] [-V] [-d] {original_metadata,sequence_search} ...
        
            Metagenomics toolkit
            --------------------
        
            positional arguments:
              {original_metadata,sequence_search}
                original_metadata   Download original metadata
                sequence_search     Search non-redundant protein database using HMMER
        
            optional arguments:
              -h, --help            show this help message and exit
              -V, --version         print version information
              -d, --debug           print debugging information
        
        
        Examples
        ========
        
        Download metadata::
        
            $ mg-toolkit original_metadata -a ERP001736
        
        
        Search non-redundant protein database using HMMER and fetch metadata
        
            $ mg-toolkit sequence_search -seq test.fasta -db full evalue --incE 0.02
        
            Databases:
            - full - Full length sequences (default)
            - all - All sequences
            - partial - Partial sequences
        
Platform: UNKNOWN
Classifier: Programming Language :: Python :: 3.4
Classifier: Programming Language :: Python :: 3.5
Classifier: Programming Language :: Python :: 3.6
Classifier: Development Status :: 4 - Beta
Classifier: Intended Audience :: Science/Research
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: License :: OSI Approved :: Apache Software License
Classifier: Operating System :: OS Independent
Description-Content-Type: text/markdown
