iAssembler: 拼接Roche-454/Sanger转录组数据的拼接软件

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所属分类:Genomics

iAssembler利用MIRA以及CAP3软件,将454以及sanger测序产生的转录组数据(EST)拼接成基因组。

官方介绍:

iAssembler is a standalone package to assemble ESTs generated using Sanger and/or Roche-454 pyrosequencing technologies into contigs. The pipeline gives much higher accuracy in EST assembly than other existing assemblers by employing an iterative assembly strategy and automated error corrections of mis-assemblies. iAssembler first performs iterative assemblies using MIRA and CAP3 (default: four cycles of MIRA assemblies followed by one CAP3 assembly) to correct assembly errors (mostly sequences derived from the same transcript fail to be assembled together) which occur frequently in just one round of assembly. The program then performs post-assembly quality checking by 1) aligning each EST sequence to its corresponding unigene sequence to identify mis-assemblies; and 2) performing all-verus-all pair-wise sequence alignments of unigenes to identify sequences derived from same transcripts that fail to be assembled together. The identified mis-assemblies are then corrected by the program automatically.

下载链接:http://bioinfo.bti.cornell.edu/tool/iAssembler/

相关文献:Yi Zheng , Liangjun Zhao , Junping Gao and Zhangjun Fei(2011)iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences.

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