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项目作者： acgtun

项目描述 ：
S3: Sequence Similarity Search (Protein Sequence)
高级语言： C++
项目地址: git://github.com/acgtun/s3.git
创建时间： 2014-10-13T20:03:52Z
项目社区：https://github.com/acgtun/s3
开源协议：GNU General Public License v3.0
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S3 v1.0

S3 (Sequence Similarity Search) is a program for searching DNA or peptide sequences in protein database.

Installation

(1) Download the source code from Github

  1. git clone git@github.com:acgtun/s3.git

(2) Build and Install

  1. cd s3
  2. make all
  3. make install

Indexing

  1. makedb -d <protein database> -o <index file>

Searching

  1. s3 -i <index file> -q <read files> -o <output file> [options]

Searching Options

Option Long Tag Type Default Brief Description
-i -index String NULL index file created by makedb command ( .dbindex)
-q -query String NULL query file (.fastq or .fq)

To see the list of options, use “-?” or “-help”.

Contacts

Haifeng Chen haifengc@usc.edu

Ting Chen tingchen@usc.edu

  1. Copyright (C) 2016 University of Southern California
  3. Authors: Haifeng Chen and Ting Chen
  5. S3 is free software: you can redistribute it and/or modify
  6. it under the terms of the GNU General Public License as published by
  7. the Free Software Foundation, either version 3 of the License, or
  8. (at your option) any later version.
  10. S3 is distributed in the hope that it will be useful,
  11. but WITHOUT ANY WARRANTY; without even the implied warranty of
  12. MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
  13. GNU General Public License for more details.
  15. You should have received a copy of the GNU General Public License
  16. along with S3.  If not, see <http://www.gnu.org/licenses></http:>.