GitHub - DexinBo/EffectorP-2.0: Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0

DexinBo / EffectorP-2.0 Public

forked from JanaSperschneider/EffectorP-2.0

Notifications You must be signed in to change notification settings
Fork 0
Star 0

Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0

Unknown, GPL-3.0 licenses found

Licenses found

0 stars 7 forks Branches Tags Activity

Star

Notifications

Branches Tags

Name		Name	Last commit message	Last commit date
Latest commit History 4 Commits
Scripts		Scripts
COPYING.txt		COPYING.txt
LICENCE.txt		LICENCE.txt
README.txt		README.txt

Repository files navigation

-----------------------------------------------------------------------------------------------------------
-----------------------------------------------------------------------------------------------------------
Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0
Copyright (C) 2017-2018 Jana Sperschneider	
Contact: [email protected]
-----------------------------------------------------------------------------------------------------------
-----------------------------------------------------------------------------------------------------------
Installation instructions for EffectorP 2.0
-----------------------------------------------------------------------------------------------------------
-----------------------------------------------------------------------------------------------------------
EffectorP relies on two tools, the EMBOSS software and the WEKA 3.8.1 software. These have been shipped 
with the EffectorP 1.0.tar.gz file, but they need to be installed by the user. 

1) Extract the EffectorP 2.0 archive:

-----------------------------------------
tar xvf EffectorP_2.0.tar.gz
cd EffectorP_2.0 
-----------------------------------------

2) Install EMBOSS

-----------------------------------------
cd Scripts
tar xvf emboss-latest.tar.gz 
cd EMBOSS-6.5.7/
./configure
make
cd ../
-----------------------------------------

3) Install WEKA: simply unzip the file weka-3-8-1.zip

-----------------------------------------
unzip weka-3-8-1.zip
-----------------------------------------

3) Run EffectorP

To test that EffectorP is working, type the following command in the working directory EffectorP_2.0/Scripts

-----------------------------------------
python EffectorP.py -i Effector_Testing.fasta
-----------------------------------------

Note that EffectorP runs under Python 2.x, not under Python 3.x.
If you are having troube installing EMBOSS, please see here for help: http://emboss.sourceforge.net/download/
If you are having troube installing WEKA, please see here for help: http://www.cs.waikato.ac.nz/~ml/weka/index.html