What is GoPipe?
GoPipe is a standalone package written in Perl that integrate Blast and/or InterProScan results to obtain GO annotations.
How to install and run?
1. You should download and install the GO-Diff package.
From the version 2 of GoPipe, it is integrated into the GO-Diff package.
2. Download the UniProt2GO association file to ../godiff/data/
3. Set your own config file following the example file at ../godiff/config/gp2.conf
4. Go into the directory of ../godiff/bin and run:
./gopipe2.pl -C ../config/your_own_config_file
How to update?
1. Download the GO OBO file to ../godiff/data/ .
2. Download the UniProt2GO association file to ../godiff/data/
Citation:
If you download or use GoPipe, please cite us in the following way:
Zuozhou Chen, Chenghai Xue, Sheng Zhu, Fengfeng Zhou, Xuefeng Bruce Ling, Guo-ping Liu, Liangbiao Chen. GoPipe: Streamlined Gene Ontology Annotation for Batch Anonymous Sequences with Statistics. Progress in Biochemistry and Biophysics, 2005, 32(2), 187-191.
Old version of GoPipe:
We recommend not to use the old version of GoPipe because it can not use the current datafiles.
How to use it ?
Instructions for using:
Availability: The package is free for all users but without any warranty.
GoPipe (current version 1.21):
System requirements:
Hardware: 512M Ram and 1G Hz CPU are suggested
Platforms: Linux/Unix
Software: Perl 5
A script for a graphical user interface .
Uncompress it to ../GoPipe_X.XX/bin/, and use it like "./gopipe_x.pl".
TK modules are required and the screen size should be set to 1024*768. We test it on GNOME and KDE desktops.
Please contact Zuozhou Chen(zzchen@genetics.ac.cn) for any question.
