Copyright (C) 2016 Min Li(limin@mail.csu.edu.cn), Zhongxiang Liao(liaozx@csu.edu.cn), Jianxin Wang(jxwang@mail.csu.edu.cn).

This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program; if not, see http://www.gnu.org/licenses/.

Jianxin Wang(jxwang@mail.csu.edu.cn), Zhongxiang Liao(liaozx@csu.edu.cn) School of Information Science and Engineering Central South University ChangSha CHINA, 410083

ISEA is a de nove assembly tool used for paired-read libraries of short reads. To get better performance, you'd better provide a mate pair library.

1)Installing.
Requirements:
g++
perl
python
make

type command:
tar zxvf ISEA.tar.gz
cd your_ISEA's_director/src
make

2)Runing.
a. configure file "config"
there is a example config file in ISEA's installation directory, you can copy this file to your working directory and modify it. There are some comments in this config file, which can help you to use it.

b. type command
perl your_ISEA's_director/bin/isea [-fast]
the option -fast will only influence the error correction step, and do not influence the assembly result, if your memory is enough, you can specify -fast.

3)Output.
combine.fasta contains resulting contigs
scaffold.fasta contains resulting scaffolds