We would like to complete our description of SOAPdenovo2 commands and get into more interesting topi...
Consed的安装与使用教程
简介 Consed 是一款非常强大的图形化 finish 软件，由 David Gordon 等人于 1998 年发布， 目前已更新至 15.0 版本。 现在 consed 已经成为基因组 finis...
Testing SOAPdenovo2 Prerelease – IV
SOAPdenovo2 runs through the following steps - (i) generate the de Bruijn graph and store it (‘pregr...
Testing SOAPdenovo2 Prelease Version – III
This commentary is a continuation of previous one. We are adding some additional information in case...
Testing SOAPdenovo2 Pre-release Version II:pregraph_sparse
Our earlier commentary on SOAPdenovo2 provided a quick overview of an assembly. In the next few comm...
Testing SOAPdenovo2 Pre-release Version
Opening the zip file: The zip file ‘SOAPdenovo2.zip’ expanded into two programs - i) pregraph_sparse...
Howto make N50 better?
N50 statistic is widely used by bioinformaticians to judge the quality of their assemblies, but it i...
Pacific Bio用于基因组组装
We are really amateurs, when it comes to Pacific Bio sequences. How amateur are we? A few weeks back...
An Intuitive Explanation for Running Velvet with Varying K-mer Sizes
We often run Velvet or other de Bruijn assemblers with varying K-mer sizes (21, 23, 25, 27, etc.) to...
一种基于454数据拼接植物细胞器基因组的策略
一般在基因组组装中，我们常用的拼接方法是，对测序得到的二代数据直接用soapdenovo等软件进行基因组组装。但是这些方法一般只是适用于单一的基因组序列。 最近做的一个课题是从植物混合测序的数据中（核...