File	Date	Author	Commit
db	2016-12-12	T.Maruyama	[8190b1] Initial commit
decontam	2016-12-12	T.Maruyama	[8190b1] Initial commit
images	2016-12-12	T.Maruyama	[8190b1] Initial commit
install	2016-12-12	T.Maruyama	[8190b1] Initial commit
tmp	2016-12-12	T.Maruyama	[8190b1] Initial commit
tools	2016-12-12	T.Maruyama	[8190b1] Initial commit
README	2016-12-19	T.Maruyama	[2e0f77] Initial commit
SAGQC.py	2016-12-12	T.Maruyama	[8190b1] Initial commit
setup.py	2016-12-12	T.Maruyama	[c42d21] Initial commit

Read Me

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# Introduction
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SAG-QC is a software developed for quality control of
bacterial single-amplified genome (SAG) sequences.
SAGs frequently contain non-target sequences derived
from contaminations. The non-target sequences mask
characteristics of target bacterium and make 
interpretation of SAGs difficult.

This software is designed for removal of the non-target
sequences with two methods: database-dependent method 
and database-independent method.
The database-dependent method is effective when 
contaminating constituents are originated from well-known 
taxonomic groups. The database-independent method is 
applicable even if target bacterium belongs to rare 
taxa whose genomic information is insufficient in the 
public databases.

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# Execution of SAG-QC
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There are two ways to execute SAG-QC.

(1) setup.py to generate standalone apprecation (.app) file. 

  python setup.py py2app

(2) Execute SAG-QC with source codes directly
  
  pythonw SAGQC.py

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# Manual
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The user manual is available in 
https://sourceforge.net/p/sag-qc/wiki/Home/