Genomic Ideogram: Circular Visualization
Circular plot or Circus plot is a type of data visualization often used in bioinformatics to display relationships between different genomic elements or datasets. It typically consists of a circular layout, with arcs, ribbons, or links connecting points on the circle to represent relationships or interactions. It is commonly used to show connections between genes, chromosomes, or other biological data in a compact and visually informative way
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}
}
// Create the configuration for the graph
var config = {
"circularArcSectorSeparation" : 3,
"colorScheme" : "Tableau",
"colors" : ["#332288","#6699CC","#88CCEE","#44AA99","#117733","#999933","#DDCC77","#661100","#CC6677","#AA4466","#882255","#AA4499"],
"circularConnections" : [
["rgb(0,0,255)",1,17615830,13,60500000,100000000,20000000],
["rgb(0,255,0)",1,2300000,8,13650000,40000000,80000000],
["rgb(120,0,255)",3,71800000,17,6800000,50000000,25000000],
["rgb(0,40,255)",7,71800000,12,5520000,200000000,80000000],
["rgb(80,0,55)",4,8430000,22,6600000,100000000,50000000],
["rgb(0,55,140)",4,3100000,14,64100000,58000000,10000000],
["rgb(255,0,0)",2,94840000,20,6243500,70000000,30000000]
],
"graphType" : "Circular",
"showIdeogram" : true,
"title" : "Default Settings",
"xAxis" : ["V1","V2","V3","V4","V5","V6","V7","V8","V9","V10","V11","V12","V13","V14","V15","V16","V17","V18","V19","V20","V21","V22","V23","V24","V25","V26","V27","V28","V29","V30","V31","V32","V33","V34","V35","V36","V37","V38","V39","V40","V41","V42","V43","V44","V45","V46","V47","V48","V49","V50","V51","V52","V53","V54","V55","V56","V57","V58","V59","V60","V61","V62","V63","V64","V65","V66","V67","V68","V69","V70","V71","V72","V73","V74","V75","V76","V77","V78","V79","V80","V81","V82","V83","V84","V85","V86","V87","V88","V89","V90","V91","V92","V93","V94","V95","V96","V97","V98","V99","V100","V101","V102","V103","V104","V105","V106","V107","V108","V109","V110","V111","V112","V113","V114","V115","V116","V117","V118","V119","V120","V121","V122","V123","V124","V125","V126","V127","V128","V129","V130","V131","V132","V133","V134","V135","V136","V137","V138","V139","V140","V141","V142","V143","V144","V145","V146","V147","V148","V149","V150","V151","V152","V153","V154","V155","V156","V157","V158","V159","V160","V161","V162","V163","V164","V165","V166","V167","V168","V169","V170","V171","V172","V173","V174","V175","V176","V177","V178","V179","V180","V181","V182","V183","V184","V185","V186","V187","V188","V189","V190","V191","V192","V193","V194","V195","V196","V197","V198","V199","V200"]
}
// Event used to create graph (optional)
var events = false
// Call the CanvasXpress function to create the graph
var cX = new CanvasXpress("canvasId", data, config, events);
</script>
</body>
</html>
library(canvasXpress)
y=read.table("https://www.canvasxpress.org/data/r/cX-ideogram-dat.txt", header=TRUE, sep="\t", quote="", row.names=1, fill=TRUE, check.names=FALSE, stringsAsFactors=FALSE)
x=read.table("https://www.canvasxpress.org/data/r/cX-ideogram-smp.txt", header=TRUE, sep="\t", quote="", row.names=1, fill=TRUE, check.names=FALSE, stringsAsFactors=FALSE)
z=read.table("https://www.canvasxpress.org/data/r/cX-ideogram-var.txt", header=TRUE, sep="\t", quote="", row.names=1, fill=TRUE, check.names=FALSE, stringsAsFactors=FALSE)
canvasXpress(
data=y,
smpAnnot=x,
varAnnot=z,
circularArcSectorSeparation=3,
circularConnections=list(list("rgb(0,0,255)", 1, 17615830, 13, 60500000, 100000000, 20000000), list("rgb(0,255,0)", 1, 2300000, 8, 13650000, 40000000, 80000000), list("rgb(120,0,255)", 3, 71800000, 17, 6800000, 50000000, 25000000), list("rgb(0,40,255)", 7, 71800000, 12, 5520000, 200000000, 80000000), list("rgb(80,0,55)", 4, 8430000, 22, 6600000, 100000000, 50000000), list("rgb(0,55,140)", 4, 3100000, 14, 64100000, 58000000, 10000000), list("rgb(255,0,0)", 2, 94840000, 20, 6243500, 70000000, 30000000)),
colorScheme="Tableau",
colors=list("#332288", "#6699CC", "#88CCEE", "#44AA99", "#117733", "#999933", "#DDCC77", "#661100", "#CC6677", "#AA4466", "#882255", "#AA4499"),
graphType="Circular",
showIdeogram=TRUE,
title="Default Settings",
xAxis=list("V1", "V2", "V3", "V4", "V5", "V6", "V7", "V8", "V9", "V10", "V11", "V12", "V13", "V14", "V15", "V16", "V17", "V18", "V19", "V20", "V21", "V22", "V23", "V24", "V25", "V26", "V27", "V28", "V29", "V30", "V31", "V32", "V33", "V34", "V35", "V36", "V37", "V38", "V39", "V40", "V41", "V42", "V43", "V44", "V45", "V46", "V47", "V48", "V49", "V50", "V51", "V52", "V53", "V54", "V55", "V56", "V57", "V58", "V59", "V60", "V61", "V62", "V63", "V64", "V65", "V66", "V67", "V68", "V69", "V70", "V71", "V72", "V73", "V74", "V75", "V76", "V77", "V78", "V79", "V80", "V81", "V82", "V83", "V84", "V85", "V86", "V87", "V88", "V89", "V90", "V91", "V92", "V93", "V94", "V95", "V96", "V97", "V98", "V99", "V100", "V101", "V102", "V103", "V104", "V105", "V106", "V107", "V108", "V109", "V110", "V111", "V112", "V113", "V114", "V115", "V116", "V117", "V118", "V119", "V120", "V121", "V122", "V123", "V124", "V125", "V126", "V127", "V128", "V129", "V130", "V131", "V132", "V133", "V134", "V135", "V136", "V137", "V138", "V139", "V140", "V141", "V142", "V143", "V144", "V145", "V146", "V147", "V148", "V149", "V150", "V151", "V152", "V153", "V154", "V155", "V156", "V157", "V158", "V159", "V160", "V161", "V162", "V163", "V164", "V165", "V166", "V167", "V168", "V169", "V170", "V171", "V172", "V173", "V174", "V175", "V176", "V177", "V178", "V179", "V180", "V181", "V182", "V183", "V184", "V185", "V186", "V187", "V188", "V189", "V190", "V191", "V192", "V193", "V194", "V195", "V196", "V197", "V198", "V199", "V200")
)
