BioInfoServOS:Ubuntu下的生物信息学软件

常言道:“工欲善其事,必先利其器”。国内多数计算机用户使用的都是Windows操作系统,甚至连科研单位也在所难免。出现这样的情况原因很多,对于一个Bio-technician而言,离不开Win的一个很大的原因是所用的专业软件运行平台离不开它。实际上,很多科研软件都是先有*nix版本的,或者有些就只有那些版本。本人之前也一直很痛苦在Ubuntu上用不了DANMAN(在Ubuntu 8.04的时侯我Wine过,但Ubuntu 9.04时侯就完全用不了了)。其实,Ubuntu的源里面就有很多这样的软件。

命令:

yuanjin@yuanjin-laptop:~$ apt-cache DNA >DNA.txt

//根据软件的描述来搜索关键词“DNA”,返回的结果输出到文本DNA.txt

yuanjin@yuanjin-laptop:~$ gedit DNA.txt

//用gedit打开文本DNA.txt后就可以根据自己需要寻找软件了。

PS:返回的结果中有部份可能会与DNA毫无关系,但是搜索到的东西比新德立软件管理器中搜到的多多了。

附-筛选过之后的搜索结果(搞我们这行的,估计这些外文都不是问题了,有兴趣自己看。重点推荐Ugene这款功能相对强悍的整合软件工具包,访问主页)。

boxshade – Pretty-printing of multiple sequence alignmentsdialign – Segment-based multiple sequence alignmentdialign-tx – Segment-based multiple sequence alignmentexonerate – generic tool for pairwise sequence comparisonfastdnaml – Tool for construction of phylogenetic trees of DNA sequenceslast-align – genome-scale comparison of biological sequencesmaq – maps short fixed-length polymorphic DNA sequence reads to reference sequencesmelting – computing the melting temperature of nucleic acid duplexmummer – Efficient sequence alignment of full genomesncbi-epcr – Tool to test a DNA sequence for the presence of sequence tagged sitesplink – whole-genome association analysis toolsetprimer3 – Tool to design flanking oligo nucleotides for DNA amplificationsibsim4 – align expressed RNA sequences on a DNA templatesigma-align – Simple greedy multiple alignment of non-coding DNA sequencessim4 – tool for aligning cDNA and genomic DNAt-coffee – Multiple Sequence Alignmenttigr-glimmer – Gene detection in archea and bacteriaugene – integrated bioinformatics toolkitugene-data – required data for UGENE – integrated bioinformatics toolkitwise – comparison of biopolymers, commonly DNA and protein sequenceswise-doc – documentation for the wise packageclustalw – global multiple nucleotide or peptide sequence alignmentmolphy – Program Package for MOLecular PHYlogenetics

,心有多大,舞台就有多大

BioInfoServOS:Ubuntu下的生物信息学软件

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