Metadata-Version: 2.1
Name: EMBL2checklists
Version: 0.4
Summary: Converts EMBL- or GenBank-formatted flatfiles to submission checklists (i.e., tab-separated spreadsheets) for submission to ENA via the interactive Webin submission system
Home-page: https://github.com/michaelgruenstaeudl/EMBL2checklists
Author: Michael Gruenstaeudl, PhD
Author-email: m.gruenstaeudl@fu-berlin.de
License: BSD
Description: *EMBL2checklists*
        =================
        
        [![PyPI status](https://img.shields.io/pypi/status/EMBL2checklists.svg)](https://pypi.python.org/pypi/EMBL2checklists/)
        [![PyPI pyversions](https://img.shields.io/pypi/pyversions/EMBL2checklists.svg)](https://pypi.python.org/pypi/EMBL2checklists/)
        [![PyPI version shields.io](https://img.shields.io/pypi/v/EMBL2checklists.svg)](https://pypi.python.org/pypi/EMBL2checklists/)
        [![PyPI license](https://img.shields.io/pypi/l/EMBL2checklists.svg)](https://pypi.python.org/pypi/EMBL2checklists/)
        
        EMBL2checklists converts EMBL- or GenBank-formatted flatfiles to submission checklists (i.e., tab-separated spreadsheets) for submission to [ENA](http://www.ebi.ac.uk/ena) via the interactive [Webin submission system](https://www.ebi.ac.uk/ena/submit/sra/#home).
        
        
        <!---
        
        ## FEATURES
        * Foo
        * Bar
        * Baz
        
        -->
        
        
        ## INPUT, OUTPUT AND PREREQUISITES
        * **Input**: EMBL- or GenBank-formatted flatfile
        * **Output**: tab-separated spreadsheet ("checklist")
        * **Prerequisites**: Input flatfiles must have the DNA marker name (e.g., "matK", "ITS") as qualifier value for any of the defined key_features ("gene", "note", "product" or "standard_name").
        
        
        ## EXAMPLE USAGE
        
        ### On Linux / MacOS
        
        #### Commandline Interface
        ```
        $ EMBL2checklists_CLI \
            -i example/example_trnKmatK.embl \
            -o example/example_trnKmatK.tsv \
            -c trnK_matK \
            -e no
        ```
        #### GUI Interface
        ```
        $ EMBL2checklists_GUI
        ```
        
        ### On Windows
        
        #### GUI Interface
        Simply double-click the file `EMBL2checklist_GUI.exe`
        
        
        ![](EMBL2checklist_GUI.png)
        
        
        ## INSTALLATION
        First, please be sure to have [Python 2.7 install](https://www.python.org/downloads/) installed on your system. Then:
        
        To get the most recent stable version of *EMBL2checklists*, run:
        
            $ pip2 install EMBL2checklists
        
        Or, alternatively, if you want to get the latest development version of *EMBL2checklists*, run:
        
            $ pip install git+https://github.com/michaelgruenstaeudl/EMBL2checklists.git
        
        
        <!---
        
        ## CITATION
        Using EMBL2checklists in your research? Please cite it!
        
        - Gruenstaeudl M., Hartmaring Y. (2018). paper_title_here. journal_title_here. https://doi.org/doi_address_here
        
        ```
        @article{GruenstaeudlHartmaring2018,
          doi = {...},
          url = {...},
          year  = {2018},
          publisher = {...},
          author = {Michael Gruenstaeudl, Yannick Hartmaring},
          title = {...},
          journal = {...}
        }
        ```
        
        -->
        
        
        ## CHANGELOG
        See [`CHANGELOG.md`](CHANGELOG.md) for a list of recent changes to the software.
        
Keywords: novel DNA sequences,public sequence databases,European Nucleotide Archive,file conversion,data upload
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: License :: OSI Approved :: BSD License
Classifier: Programming Language :: Python :: 2.7
Classifier: Intended Audience :: Science/Research
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Description-Content-Type: text/markdown
