linux+基因组字符替换,IDBA-UD组装基因组简单用法

之前组装基因组一直用另外一个软件：SPAdes，组装效果还不错，但是IDBA的大名早就听说过，所以趁着这次刚那个两个菌的数据，分别用这两个软件组装一下，对比一下效果，在SPAdes的网站上面看到过几个组装软件的对比图，毫无疑问，SPAdes排第一，但是IDBA能排第二，说明IDBA的组装效果还可以。

一，使用说明

安装

If you use the

release package.

Exract the package, then use make to compile the source

code.

$ ./configure

$ make

Introduction

IDBA is the basic iterative de Bruijn graph assembler for

second-generation sequencing reads.

主要的部分分为以下三个：

IDBA-UD, an extension of IDBA, is designed to

utilize paired-end reads to assemble low-depth regions and use

progressive depth on contigs to reduce errors in high-depth

regions. It is a generic purpose assembler and epspacially

good for single-cell and metagenomic

sequencing data.

IDBA-Hybrid is another up