HilbertCurve: an R/Bioconductor package for high-resolution visualization of genomic data

被引:21
作者
Gu, Zuguang [1 ,2 ]
Eils, Roland [1 ,2 ,3 ,4 ]
Schlesner, Matthias [1 ,2 ]
机构
[1] German Canc Res Ctr, Div Theoret Bioinformat, Heidelberg, Germany
[2] German Canc Res Ctr, Heidelberg Ctr Personalized Oncol DKFZ HIPO, Heidelberg, Germany
[3] Heidelberg Univ, IPMB, Dept Bioinformat & Funct Genom, Heidelberg, Germany
[4] Heidelberg Univ, BioQuant, Heidelberg, Germany
关键词
D O I
10.1093/bioinformatics/btw161
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Hilbert curves enable high-resolution visualization of genomic data on a chromosomeor genome-wide scale. Here we present the HilbertCurve package that provides an easy-to-use interface for mapping genomic data to Hilbert curves. The package transforms the curve as a virtual axis, thereby hiding the details of the curve construction from the user. HilbertCurve supports multiple-layer overlay that makes it a powerful tool to correlate the spatial distribution of multiple feature types. Availability and implementation: The HilbertCurve package and documentation are freely available from the Bioconductor project: http://www.bioconductor.org/packages/devel/bioc/html/HilbertCurve.html
引用
收藏
页码:2372 / 2374
页数:3
相关论文
共 8 条
[1]  
Anders S, 2009, BIOINFORMATICS, V25, P10
[2]  
[Anonymous], NATURE
[3]  
Henry G., 2012, NUCLEIC ACIDS RES, V40, P19
[4]  
Hilbert D., 1891, Math. Annal., V38, P459, DOI [10.1007/BF01199431, DOI 10.1007/BF01199431]
[5]  
Hon H.C, 2012, GENOME RES, V22, P2
[6]   Software for Computing and Annotating Genomic Ranges [J].
Lawrence, Michael ;
Huber, Wolfgang ;
Pages, Herve ;
Aboyoun, Patrick ;
Carlson, Marc ;
Gentleman, Robert ;
Morgan, Martin T. ;
Carey, Vincent J. .
PLOS COMPUTATIONAL BIOLOGY, 2013, 9 (08)
[7]   EVOLUTION REWRITTEN [J].
Wong, Kate .
SCIENTIFIC AMERICAN, 2014, 311 (03) :36-39
[8]   A copy number variation map of the human genome [J].
Zarrei, Mehdi ;
MacDonald, Jeffrey R. ;
Merico, Daniele ;
Scherer, Stephen W. .
NATURE REVIEWS GENETICS, 2015, 16 (03) :172-183