我们都知道，测序本身并不难，难就难在基因组的后续组装拼接，因为它涉及到大量需要考虑的问题，如重复、到位、覆盖率等等，于是如何有效的得到最后的序列或者有意义的Scaffold是做基因组面临的一个很大问题...
SOAPdenovo的一个组装过程
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Testing SOAPdenovo2 Prerelease – V (map and scaff)
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...
String Graph of a Genome
Regular readers are familiar with our explanation of de Bruijn graphs through the following steps - ...
How do sequencing errors affect de Bruijn graphs?
Today’s commentary is the fourth in our de Bruijn graph series, but I did not like Roman characters ...
De Bruijn graphs(3)
In earlier commentaries, we introduced the concept of de Bruijn graphs and showed how they were used...