Open AccessAutoSeqMan：用于组装第一代测序数据的自动化工具
Author(s) -
Jing Jin,
Yanbo Sun
Publication year - 2018
Publication title -
zoological research
Language(s) - Uncategorized
Resource type - Journals
SCImago Journal Rank - 0.933
H-Index - 19
ISSN - 2095-8137
DOI - 10.24272/j.issn.2095-8137.2018.027
Subject(s) - contig , scripting language , preprocessor , computer science , sanger sequencing , sample (material) , software , interface (matter) , dna sequencing , artificial intelligence , programming language , biology , operating system , dna , genetics , chemistry , bubble , chromatography , genome , maximum bubble pressure method , gene
With the wide application of DNA sequencing technology, DNA sequences are still increasingly generated through the Sanger sequencing platform. SeqMan (in the LaserGene package) is an excellent program with an easy-to-use graphical user interface (GUI) employed to assemble Sanger sequences into contigs. However, with increasing data size, larger sample sets and more sequenced loci make contig assemble complicated due to the considerable number of manual operations required to run SeqMan. Here, we present the 'autoSeqMan' software program, which can automatedly assemble contigs using SeqMan scripting language. There are two main modules available, namely, 'Classification' and 'Assembly'. Classification first undertakes preprocessing work, whereas Assembly generates a SeqMan script to consecutively assemble contigs for the classified files. Through comparison with manual operation, we showed that autoSeqMan saved substantial time in the preprocessing and assembly of Sanger sequences. We hope this tool will be useful for those with large sample sets to analyze, but with little programming experience. It is freely available at https://github.com/ Sun-Yanbo/autoSeqMan.