MagicViewer: integrated solution for next-generation sequencing data visualization and genetic variation detection and annotation.
MagicViewer: integrated solution for next-generation sequencing data visualization and genetic variation detection and annotation.
复制标题
DOI：
10.1093/nar/gkq302
复制
发表时间：
2010-07
影响因子：
14.9
通讯作者：
Sun Z
中科院分区：
文献类型：
--
作者：
Hou H;Zhao F;Zhou L;Zhu E;Teng H;Li X;Bao Q;Wu J;Sun Z
新的测序技术，如Roche 454，ABI SOLiD和Illumina，以惊人的速度不断发展，具有高通量，减少时间和成本的优势。为了满足破译下一代测序产生的大规模数据的迫切需要，开发了一种集成软件MagicViewer，可以轻松地可视化短读段作图，识别和注释基于参考基因组的遗传变异。MagicViewer提供了一个用户友好的环境，在该环境中，可以通过独立于操作系统的方式，在用户定义的配色方案下，在可缩放的界面中显示大规模的短读数。同时，它还拥有一个通用的计算管道，用于遗传变异检测，过滤，注释和可视化，提供搜索选项，功能分类，子集选择，序列关联和引物设计的细节。综上所述，MagicViewer是一款先进的组装可视化和遗传变异注释工具，适用于下一代测序数据，可广泛用于各种基于测序的研究，包括基因组重测序和转录组研究。MagicViewer可在http://bioinformatics.zj.cn/magicviewer/免费获得。
New sequencing technologies, such as Roche 454, ABI SOLiD and Illumina, have been increasingly developed at an astounding pace with the advantages of high throughput, reduced time and cost. To satisfy the impending need for deciphering the large-scale data generated from next-generation sequencing, an integrated software MagicViewer is developed to easily visualize short read mapping, identify and annotate genetic variation based on the reference genome. MagicViewer provides a user-friendly environment in which large-scale short reads can be displayed in a zoomable interface under user-defined color scheme through an operating system-independent manner. Meanwhile, it also holds a versatile computational pipeline for genetic variation detection, filtration, annotation and visualization, providing details of search option, functional classification, subset selection, sequence association and primer design. In conclusion, MagicViewer is a sophisticated assembly visualization and genetic variation annotation tool for next-generation sequencing data, which can be widely used in a variety of sequencing-based researches, including genome re-sequencing and transcriptome studies. MagicViewer is freely available at http://bioinformatics.zj.cn/magicviewer/.
登录
查看更多内容
BAMVIEW：在参考序列的上下文中查看映射的读取对齐数据。
影响因子：
5.8
作者：
Carver, Tim;Bohme, Ulrike;Otto, Thomas D.;Parkhill, Julian;Berriman, Matthew
通讯作者：
Berriman, Matthew
DOI：
10.1093/bioinformatics/btp611
发表时间：
2010-01-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Arner E;Hayashizaki Y;Daub CO
通讯作者：
Daub CO
影响因子：
7
作者：
Li, Heng;Ruan, Jue;Durbin, Richard
通讯作者：
Durbin, Richard
DOI：
10.1093/bioinformatics/btp352
发表时间：
2009-08-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Li H;Handsaker B;Wysoker A;Fennell T;Ruan J;Homer N;Marth G;Abecasis G;Durbin R;1000 Genome Project Data Processing Subgroup
通讯作者：
1000 Genome Project Data Processing Subgroup
影响因子：
7
作者：
Huang, Weichun;Marth, Gabor
通讯作者：
Marth, Gabor