榨汁机为环解析 Hi-C 实验的分析提供了一键式系统。
Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments.
机构信息
The Center for Genome Architecture, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA; Department of Computer Science and Department of Computational and Applied Mathematics, Rice University, Houston, TX 77005, USA; Broad Institute of Harvard and Massachusetts Institute of Technology (MIT), Cambridge, MA 02139, USA.
The Center for Genome Architecture, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA; Department of Computer Science and Department of Computational and Applied Mathematics, Rice University, Houston, TX 77005, USA.
出版信息
Cell Syst. 2016 Jul;3(1):95-8. doi: 10.1016/j.cels.2016.07.002.
Hi-C experiments explore the 3D structure of the genome, generating terabases of data to create high-resolution contact maps. Here, we introduce Juicer, an open-source tool for analyzing terabase-scale Hi-C datasets. Juicer allows users without a computational background to transform raw sequence data into normalized contact maps with one click. Juicer produces a hic file containing compressed contact matrices at many resolutions, facilitating visualization and analysis at multiple scales. Structural features, such as loops and domains, are automatically annotated. Juicer is available as open source software at http://aidenlab.org/juicer/.
Hi-C 实验探索基因组的 3D 结构，生成兆兆字节的数据以创建高分辨率的接触图谱。在这里，我们介绍了 Juicer，这是一种用于分析兆兆字节规模 Hi-C 数据集的开源工具。Juicer 允许没有计算背景的用户只需点击一下即可将原始序列数据转换为标准化的接触图谱。Juicer 生成一个 hic 文件，其中包含许多分辨率的压缩接触矩阵，便于在多个尺度上进行可视化和分析。结构特征，如环和域，会自动注释。Juicer 可在 http://aidenlab.org/juicer/ 作为开源软件获取。
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