This is a pre-production deployment of Warehouse, however changes made here WILL affect the production instance of PyPI.
Latest Version Dependencies status unknown Test status unknown Test coverage unknown
Project Description

Scoary is designed to take the gene_presence_absence.csv file from Roary as well as a traits file created by the user and calculate the assocations between all genes in the accessory genome and the traits. It reports a list of genes sorted by strength of association per trait.

Dependencies

  • Python (Tested with versions 2.7 and 3.5)
  • SciPy (Tested with versions 0.16, 0.17, 0.18)

If you supply custom trees (Optional)

  • ete3
  • six

Note that ete3 and six are not automatically installed. You can do pip install ete3 six to get them

Using the GUI (Optional)

  • Tkinter/ttk

Tkinter/ttk is already part of most python distributions. If you lack it consider getting Homebrew/Linuxbrew and running brew install python –with-tcl-tk

Installation

The easiest way to install Scoary is through the pip package manager:

pip install scoary

Usage

scoary -g <gene_presence_absence.csv> -t <traits.csv>

Documentation

The most updated documentation for scoary is found at the project site

License

Scoary is freely available under a GPLv3 license.

Contact

Ola Brynildsrud (ola.brynildsrud@fhi.no)

Release History

Release History

1.6.8

This version

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1.6.7

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1.6.5

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1.6.4

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Donec et mollis dolor. Praesent et diam eget libero egestas mattis sit amet vitae augue. Nam tincidunt congue enim, ut porta lorem lacinia consectetur. Donec ut libero sed arcu vehicula ultricies a non tortor. Lorem ipsum dolor sit amet, consectetur adipiscing elit.

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1.6.3

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Donec et mollis dolor. Praesent et diam eget libero egestas mattis sit amet vitae augue. Nam tincidunt congue enim, ut porta lorem lacinia consectetur. Donec ut libero sed arcu vehicula ultricies a non tortor. Lorem ipsum dolor sit amet, consectetur adipiscing elit.

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1.6.2

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Donec et mollis dolor. Praesent et diam eget libero egestas mattis sit amet vitae augue. Nam tincidunt congue enim, ut porta lorem lacinia consectetur. Donec ut libero sed arcu vehicula ultricies a non tortor. Lorem ipsum dolor sit amet, consectetur adipiscing elit.

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1.6.1

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Donec et mollis dolor. Praesent et diam eget libero egestas mattis sit amet vitae augue. Nam tincidunt congue enim, ut porta lorem lacinia consectetur. Donec ut libero sed arcu vehicula ultricies a non tortor. Lorem ipsum dolor sit amet, consectetur adipiscing elit.

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1.6.0

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Donec et mollis dolor. Praesent et diam eget libero egestas mattis sit amet vitae augue. Nam tincidunt congue enim, ut porta lorem lacinia consectetur. Donec ut libero sed arcu vehicula ultricies a non tortor. Lorem ipsum dolor sit amet, consectetur adipiscing elit.

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Download Files

Download Files

TODO: Brief introduction on what you do with files - including link to relevant help section.

File Name & Checksum SHA256 Checksum Help Version File Type Upload Date
scoary-1.6.8-py2.py3-none-any.whl (278.1 kB) Copy SHA256 Checksum SHA256 2.7 Wheel Nov 30, 2016
scoary-1.6.8.tar.gz (251.6 kB) Copy SHA256 Checksum SHA256 Source Nov 30, 2016

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