Pirooznia Mehdi, Perkins Edward J, Deng Youping
Department of Biological Sciences, University of Southern MS, Hattiesburg 39406, USA.
BMC Genomics. 2008 Sep 16;9 Suppl 2(Suppl 2):S10. doi: 10.1186/1471-2164-9-S2-S10.
BLAST programs are very efficient in finding similarities for sequences. However for large datasets such as ESTs, manual extraction of the information from the batch BLAST output is needed. This can be time consuming, insufficient, and inaccurate. Therefore implementation of a parser application would be extremely useful in extracting information from BLAST outputs.
We have developed a java application, Batch Blast Extractor, with a user friendly graphical interface to extract information from BLAST output. The application generates a tab delimited text file that can be easily imported into any statistical package such as Excel or SPSS for further analysis. For each BLAST hit, the program obtains and saves the essential features from the BLAST output file that would allow further analysis. The program was written in Java and therefore is OS independent. It works on both Windows and Linux OS with java 1.4 and higher. It is freely available from: http://mcbc.usm.edu/BatchBlastExtractor/
BLAST程序在查找序列相似性方面效率很高。然而，对于诸如ESTs这样的大型数据集，需要从批量BLAST输出中手动提取信息。这可能既耗时、又不充分且不准确。因此，实现一个解析器应用程序对于从BLAST输出中提取信息将非常有用。
我们开发了一个Java应用程序Batch Blast Extractor，它具有用户友好的图形界面，用于从BLAST输出中提取信息。该应用程序生成一个以制表符分隔的文本文件，可以轻松导入到任何统计软件包（如Excel或SPSS）中进行进一步分析。对于每次BLAST命中，该程序从BLAST输出文件中获取并保存基本特征，以便进行进一步分析。该程序用Java编写，因此与操作系统无关。它在装有Java 1.4及更高版本的Windows和Linux操作系统上均可运行。可从以下网址免费获取：http://mcbc.usm.edu/BatchBlastExtractor/
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