shinyCircos

Software references

1. R Development Core Team. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna (2016)
2. RStudio and Inc. shiny: Web Application Framework for R. R package version 1.0.0 (2016)
3. Gu, Z. circlize: Circular Visualization. R package version 0.4.1 (2017)
4. Neuwirth, E. RColorBrewer: ColorBrewer palettes. R package version 1.1-2 (2014)
5. Lawrence, M. GenomicRanges: Representation and manipulation of genomic intervals and variables defined along a genome. R package version 1.24.3 (2016)
6. Dowle, M. data.table: Extension of Data.frame. R package version 1.9.6 (2015)
7. Burow, C. RLumShiny: "Shiny" Applications for the R Package "Luminescence". R package version 0.1.1 (2016)
8. R Core Team and contributors worldwide. grDevices: Graphics devices and support for base and grid graphics. R package version 3.3.3 (2016)

Further references

This application was created by Wen Yao and Yiming Yu . Please send bugs and feature requests to Wen Yao (ywhzau at gmail.com) or Yiming Yu (yimingyyu at gmail.com). This application uses the shiny package from RStudio .

Please cite

Yiming Yu, Yidan Ouyang, and Wen Yao. shinyCircos: an R/Shiny application for interactive creation of Circos plot. Bioinformatics. 2017 Nov. 24. doi:10.1093/bioinformatics/btx763

!!Note!!

Users are encouraged to install and use shinyCircos on local personal computers. Please check the help menu of the shinyCircos application or https://github.com/venyao/shinyCircos for the installation of shinyCircos on local computers.

Download example data

Example chromosomes data

general data cytoband data

Example tracks data

point data line data barplot data heatmap data ideogram data rect (discrete) data point (multicolumn) data barplot (bidirectional) data rect (gradual) data line (multicolumn) data line (color) data barplot (color) data point (color) data point (pch) data point (color+pch) data point (cex) data point (pch+cex) data point (color+cex) data point (color+pch+cex) data label data point (stack) data line (stack) data

Example links data

links data links (discrete color) data links (gradual color) data

Glimpse of data uploaded

Chromosomes data

Label

Tracks data

Track1

Label1

Track2

Label2

Track3

Label3

Track4

Label4

Track5

Label5

Track6

Label6

Track7

Label7

Track8

Label8

Track9

Label9

Track10

Label10

Links data

Download pdf-file Download svg-file Download the R scripts to reproduce the Circos plot

shinyCircos: an R/Shiny application for interactive creation of Circos plot

About

Plot options

Gallery

Help

This application was created by Wen Yao and Yiming Yu . Please send bugs and feature requests to Wen Yao (ywhzau at gmail.com) or Yiming Yu (yimingyyu at gmail.com). This application uses the shiny package from RStudio .

Yiming Yu, Yidan Ouyang, and Wen Yao. shinyCircos: an R/Shiny application for interactive creation of Circos plot. Bioinformatics. 2017 Nov. 24. doi:10.1093/bioinformatics/btx763

Users are encouraged to install and use shinyCircos on local personal computers. Please check the help menu of the shinyCircos application or https://github.com/venyao/shinyCircos for the installation of shinyCircos on local computers.