DNA Rchitect: an R based visualizer for network analysis of chromatin interaction data.
DNA Rchitect: an R based visualizer for network analysis of chromatin interaction data.
复制标题
DNA Rchitect：基于 R 的可视化工具，用于染色质相互作用数据的网络分析。
DOI：
10.1093/bioinformatics/btz608
复制
发表时间：
2020
期刊：
影响因子：
--
通讯作者：
Diallo,A
中科院分区：
文献类型：
--
作者：
Ramirez,RN;Bedirian,K;Gray,SM;Diallo,A
MotivationVisualization of multiple genomic data generally requires the use of public or commercially hosted browsers. Flexible visualization of chromatin interaction data as genomic features and network components offer informative insights to gene expression. An open source application for visualizing HiC and chromatin conformation-based data as 2D-arcs accompanied by interactive network analyses is valuable.ResultsDNA Rchitect is a new tool created to visualize HiC and chromatin conformation-based contacts at high (Kb) and low (Mb) genomic resolutions. The user can upload their pre-filtered HiC experiment in bedpe format to the DNA Rchitect web app that we have hosted or to a version they themselves have deployed. Using DNA Rchitect, the uploaded data allows the user to visualize different interactions of their sample, perform simple network analyses, while also offering visualization of other genomic data types. The user can then download their results for additional network functionality offered in network based programs such as Cytoscape.Availability and implementationDNA Rchitect is freely available both as a web application written primarily in R available at http://shiny.immgen.org/DNARchitect/ and as an open source released under an MIT license at: https://github.com/alosdiallo/DNA_Rchitect.
