TCGA Genomic Data: Cancer Type-Colored Violin Plots
The Cancer Genome Atlas (TCGA) is a landmark cancer genomics program that has generated a vast amount of multi-omics data, including genomic, epigenomic, and transcriptomic information. This data is invaluable for researchers seeking to understand the complexities of cancer and develop novel diagnostic and therapeutic strategies. TCGA data can be visualized and analyzed through various graph-based approaches, offering powerful ways to explore relationships and patterns within the data. Graph representations of TCGA data are particularly useful in visualizing complex networks of interactions between genes, proteins, and other biological molecules. These graphs can be used to identify key driver mutations, discover novel therapeutic targets, and predict patient prognosis. Such analyses require specialized bioinformatics tools and expertise to manage and interpret the large and complex datasets generated by TCGA. The insights gleaned from TCGA graphs are contributing significantly to cancer research and personalized medicine. Data obtained from Facilitating Exploratory Data Visualization: Application to TCGA Genomic Data.
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"vars" : ["GATA3","PTEN","XBP1"]
}
}
// Create the configuration for the graph
var config = {
"boxplotWhiskersType" : "single",
"colorBy" : "dataset",
"colorScheme" : "JCO",
"graphOrientation" : "vertical",
"graphType" : "Boxplot",
"groupingFactors" : ["dataset"],
"histogramBins" : 150,
"layoutTopology" : "1X3",
"legendColumns" : 3,
"legendKeyBackgroundBorderColor" : "rgba(255,255,255,0)",
"legendKeyBackgroundColor" : "rgba(255,255,255,0)",
"legendPosition" : "top",
"legendTextScaleFontFactor" : 1.5,
"plotStyle" : "open",
"segregateVariablesBy" : ["variable"],
"showViolinBoxplot" : true,
"smpTextRotate" : 90,
"stripBackgroundBorderColor" : "rgb(0,0,0)",
"stripTextColor" : "rgb(0,0,0)",
"toolbarType" : "over",
"xAxis": ["GATA3","PTEN","XBP1"]
}
// 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-exprtcga-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-exprtcga-smp.txt", header=TRUE, sep="\t", quote="", row.names=1, fill=TRUE, check.names=FALSE, stringsAsFactors=FALSE)
canvasXpress(
data=y,
smpAnnot=x,
boxplotWhiskersType="single",
colorBy="dataset",
colorScheme="JCO",
graphOrientation="vertical",
graphType="Boxplot",
groupingFactors=list("dataset"),
histogramBins=150,
layoutTopology="1X3",
legendColumns=3,
legendKeyBackgroundBorderColor="rgba(255,255,255,0)",
legendKeyBackgroundColor="rgba(255,255,255,0)",
legendPosition="top",
legendTextScaleFontFactor=1.5,
plotStyle="open",
segregateVariablesBy=list("variable"),
showViolinBoxplot=TRUE,
smpTextRotate=90,
stripBackgroundBorderColor="rgb(0,0,0)",
stripTextColor="rgb(0,0,0)",
toolbarType="over",
xAxis=list("GATA3", "PTEN", "XBP1")
)
from canvasxpress.canvas import CanvasXpress
from canvasxpress.plot import show_in_browser
if __name__ == "__main__":
# Define the chart with its data and configuration
chart: CanvasXpress = CanvasXpress(
render_to = "tcga4",
data = {
"x": {
"dataset": ["BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", "BRCA", 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],
"smps": ["BRCA1", "BRCA2", "BRCA3", "BRCA4", "BRCA5", "BRCA6", "BRCA7", "BRCA8", "BRCA9", "BRCA10", "BRCA11", "BRCA12", "BRCA13", "BRCA14", "BRCA15", "BRCA16", "BRCA17", "BRCA18", "BRCA19", "BRCA20", "BRCA21", "BRCA22", "BRCA23", "BRCA24", "BRCA25", "BRCA26", "BRCA27", "BRCA28", "BRCA29", "BRCA30", "BRCA31", "BRCA32", "BRCA33", "BRCA34", "BRCA35", "BRCA36", "BRCA37", "BRCA38", "BRCA39", "BRCA40", "BRCA41", "BRCA42", "BRCA43", "BRCA44", "BRCA45", "BRCA46", "BRCA47", "BRCA48", "BRCA49", "BRCA50", "BRCA51", "BRCA52", "BRCA53", "BRCA54", "BRCA55", "BRCA56", "BRCA57", "BRCA58", "BRCA59", "BRCA60", "BRCA61", "BRCA62", "BRCA63", "BRCA64", "BRCA65", "BRCA66", "BRCA67", "BRCA68", "BRCA69", "BRCA70", "BRCA71", "BRCA72", "BRCA73", "BRCA74", "BRCA75", "BRCA76", "BRCA77", "BRCA78", "BRCA79", "BRCA80", "BRCA81", "BRCA82", "BRCA83", "BRCA84", "BRCA85", "BRCA86", "BRCA87", "BRCA88", "BRCA89", "BRCA90", "BRCA91", "BRCA92", "BRCA93", "BRCA94", "BRCA95", "BRCA96", "BRCA97", "BRCA98", "BRCA99", "BRCA100", "BRCA101", "BRCA102", "BRCA103", "BRCA104", "BRCA105", "BRCA106", "BRCA107", "BRCA108", "BRCA109", "BRCA110", "BRCA111", "BRCA112", "BRCA113", "BRCA114", "BRCA115", "BRCA116", "BRCA117", "BRCA118", "BRCA119", "BRCA120", "BRCA121", "BRCA122", "BRCA123", "BRCA124", "BRCA125", "BRCA126", "BRCA127", "BRCA128", "BRCA129", "BRCA130", "BRCA131", "BRCA132", "BRCA133", "BRCA134", "BRCA135", "BRCA136", "BRCA137", "BRCA138", "BRCA139", "BRCA140", "BRCA141", "BRCA142", "BRCA143", "BRCA144", "BRCA145", "BRCA146", "BRCA147", "BRCA148", "BRCA149", "BRCA150", "BRCA151", "BRCA152", "BRCA153", "BRCA154", "BRCA155", "BRCA156", "BRCA157", "BRCA158", "BRCA159", "BRCA160", "BRCA161", "BRCA162", "BRCA163", "BRCA164", "BRCA165", "BRCA166", "BRCA167", "BRCA168", "BRCA169", "BRCA170", "BRCA171", "BRCA172", "BRCA173", "BRCA174", "BRCA175", "BRCA176", "BRCA177", "BRCA178", "BRCA179", "BRCA180", "BRCA181", "BRCA182", "BRCA183", "BRCA184", "BRCA185", "BRCA186", "BRCA187", "BRCA188", "BRCA189", "BRCA190", "BRCA191", "BRCA192", "BRCA193", "BRCA194", "BRCA195", "BRCA196", "BRCA197", "BRCA198", "BRCA199", "BRCA200", "BRCA201", "BRCA202", "BRCA203", "BRCA204", "BRCA205", "BRCA206", "BRCA207", "BRCA208", "BRCA209", "BRCA210", "BRCA211", "BRCA212", "BRCA213", "BRCA214", "BRCA215", "BRCA216", "BRCA217", "BRCA218", "BRCA219", "BRCA220", "BRCA221", "BRCA222", "BRCA223", "BRCA224", "BRCA225", "BRCA226", "BRCA227", "BRCA228", "BRCA229", "BRCA230", "BRCA231", "BRCA232", "BRCA233", "BRCA234", "BRCA235", "BRCA236", "BRCA237", "BRCA238", "BRCA239", "BRCA240", "BRCA241", "BRCA242", "BRCA243", "BRCA244", "BRCA245", "BRCA246", "BRCA247", "BRCA248", "BRCA249", "BRCA250", "BRCA251", "BRCA252", "BRCA253", "BRCA254", "BRCA255", "BRCA256", "BRCA257", "BRCA258", "BRCA259", "BRCA260", "BRCA261", "BRCA262", "BRCA263", "BRCA264", "BRCA265", "BRCA266", "BRCA267", "BRCA268", "BRCA269", "BRCA270", "BRCA271", "BRCA272", "BRCA273", "BRCA274", "BRCA275", "BRCA276", "BRCA277", "BRCA278", "BRCA279", "BRCA280", "BRCA281", "BRCA282", "BRCA283", "BRCA284", "BRCA285", "BRCA286", "BRCA287", "BRCA288", "BRCA289", "BRCA290", "BRCA291", "BRCA292", "BRCA293", "BRCA294", "BRCA295", "BRCA296", "BRCA297", "BRCA298", "BRCA299", "BRCA300", "BRCA301", "BRCA302", "BRCA303", "BRCA304", "BRCA305", "BRCA306", "BRCA307", "BRCA308", "BRCA309", "BRCA310", "BRCA311", "BRCA312", "BRCA313", "BRCA314", "BRCA315", "BRCA316", "BRCA317", "BRCA318", "BRCA319", "BRCA320", "BRCA321", "BRCA322", "BRCA323", "BRCA324", "BRCA325", "BRCA326", "BRCA327", "BRCA328", "BRCA329", "BRCA330", "BRCA331", "BRCA332", "BRCA333", "BRCA334", "BRCA335", "BRCA336", "BRCA337", "BRCA338", "BRCA339", "BRCA340", "BRCA341", "BRCA342", "BRCA343", "BRCA344", "BRCA345", "BRCA346", "BRCA347", "BRCA348", "BRCA349", "BRCA350", "BRCA351", "BRCA352", "BRCA353", "BRCA354", "BRCA355", "BRCA356", "BRCA357", "BRCA358", "BRCA359", "BRCA360", "BRCA361", "BRCA362", "BRCA363", "BRCA364", "BRCA365", "BRCA366", "BRCA367", "BRCA368", "BRCA369", "BRCA370", "BRCA371", "BRCA372", "BRCA373", "BRCA374", "BRCA375", "BRCA376", "BRCA377", "BRCA378", "BRCA379", "BRCA380", "BRCA381", "BRCA382", "BRCA383", "BRCA384", "BRCA385", "BRCA386", "BRCA387", "BRCA388", "BRCA389", "BRCA390", "BRCA391", "BRCA392", "BRCA393", "BRCA394", "BRCA395", "BRCA396", "BRCA397", "BRCA398", "BRCA399", "BRCA400", "BRCA401", "BRCA402", "BRCA403", "BRCA404", "BRCA405", "BRCA406", "BRCA407", "BRCA408", "BRCA409", "BRCA410", "BRCA411", "BRCA412", "BRCA413", "BRCA414", "BRCA415", "BRCA416", "BRCA417", "BRCA418", "BRCA419", "BRCA420", "BRCA421", "BRCA422", "BRCA423", "BRCA424", "BRCA425", "BRCA426", "BRCA427", "BRCA428", "BRCA429", "BRCA430", "BRCA431", "BRCA432", "BRCA433", "BRCA434", "BRCA435", "BRCA436", "BRCA437", "BRCA438", "BRCA439", "BRCA440", "BRCA441", "BRCA442", "BRCA443", "BRCA444", "BRCA445", "BRCA446", "BRCA447", "BRCA448", "BRCA449", "BRCA450", "BRCA451", "BRCA452", "BRCA453", "BRCA454", "BRCA455", "BRCA456", "BRCA457", "BRCA458", "BRCA459", "BRCA460", "BRCA461", "BRCA462", "BRCA463", "BRCA464", "BRCA465", "BRCA466", "BRCA467", "BRCA468", "BRCA469", "BRCA470", "BRCA471", "BRCA472", "BRCA473", "BRCA474", "BRCA475", "BRCA476", "BRCA477", "BRCA478", "BRCA479", "BRCA480", "BRCA481", "BRCA482", "BRCA483", "BRCA484", "BRCA485", "BRCA486", "BRCA487", "BRCA488", "BRCA489", "BRCA490", "BRCA491", "BRCA492", "BRCA493", "BRCA494", "BRCA495", "BRCA496", "BRCA497", "BRCA498", "BRCA499", "BRCA500", "BRCA501", "BRCA502", "BRCA503", "BRCA504", "BRCA505", "BRCA506", "BRCA507", "BRCA508", "BRCA509", "BRCA510", "BRCA511", "BRCA512", "BRCA513", "BRCA514", "BRCA515", "BRCA516", "BRCA517", "BRCA518", "BRCA519", "BRCA520", "BRCA521", "BRCA522", "BRCA523", "BRCA524", "BRCA525", "BRCA526", "BRCA527", "BRCA528", "BRCA529", "BRCA530", "BRCA531", "BRCA532", "BRCA533", "BRCA534", "BRCA535", "BRCA536", "BRCA537", "BRCA538", "BRCA539", "BRCA540", "BRCA541", "BRCA542", "BRCA543", "BRCA544", "BRCA545", "BRCA546", "BRCA547", "BRCA548", "BRCA549", "BRCA550", "BRCA551", "BRCA552", "BRCA553", "BRCA554", "BRCA555", "BRCA556", "BRCA557", "BRCA558", "BRCA559", "BRCA560", "BRCA561", "BRCA562", "BRCA563", "BRCA564", "BRCA565", "BRCA566", "BRCA567", "BRCA568", "BRCA569", "BRCA570", "BRCA571", "BRCA572", "BRCA573", "BRCA574", "BRCA575", "BRCA576", "BRCA577", "BRCA578", "BRCA579", "BRCA580", "BRCA581", "BRCA582", "BRCA583", "BRCA584", "BRCA585", "BRCA586", "BRCA587", "BRCA588", "BRCA589", "BRCA590", "OV1", "OV2", "OV3", "OV4", "OV5", "OV6", "OV7", "OV8", "OV9", "OV10", "OV11", "OV12", "OV13", "OV14", "OV15", "OV16", "OV17", "OV18", "OV19", "OV20", "OV21", "OV22", "OV23", "OV24", "OV25", "OV26", "OV27", "OV28", "OV29", "OV30", "OV31", "OV32", "OV33", "OV34", "OV35", "OV36", "OV37", "OV38", "OV39", "OV40", "OV41", "OV42", "OV43", "OV44", "OV45", "OV46", "OV47", "OV48", "OV49", "OV50", "OV51", "OV52", "OV53", "OV54", "OV55", "OV56", "OV57", "OV58", "OV59", "OV60", "OV61", "OV62", "OV63", "OV64", "OV65", "OV66", "OV67", "OV68", "OV69", "OV70", "OV71", "OV72", "OV73", "OV74", "OV75", "OV76", "OV77", "OV78", "OV79", "OV80", "OV81", "OV82", "OV83", "OV84", "OV85", "OV86", "OV87", "OV88", "OV89", "OV90", "OV91", "OV92", "OV93", "OV94", "OV95", "OV96", "OV97", "OV98", "OV99", "OV100", "OV101", "OV102", "OV103", "OV104", "OV105", "OV106", "OV107", "OV108", "OV109", "OV110", "OV111", "OV112", "OV113", "OV114", "OV115", "OV116", "OV117", "OV118", "OV119", "OV120", "OV121", "OV122", "OV123", "OV124", "OV125", "OV126", "OV127", "OV128", "OV129", "OV130", "OV131", "OV132", "OV133", "OV134", "OV135", "OV136", "OV137", "OV138", "OV139", "OV140", "OV141", "OV142", "OV143", "OV144", "OV145", "OV146", "OV147", "OV148", "OV149", "OV150", "OV151", "OV152", "OV153", "OV154", "OV155", "OV156", "OV157", "OV158", "OV159", "OV160", "OV161", "OV162", "OV163", "OV164", "OV165", "OV166", "OV167", "OV168", "OV169", "OV170", "OV171", "OV172", "OV173", "OV174", "OV175", "OV176", "OV177", "OV178", "OV179", "OV180", "OV181", "OV182", "OV183", "OV184", "OV185", "OV186", "OV187", "OV188", "OV189", "OV190", "OV191", "OV192", "OV193", "OV194", "OV195", "OV196", "OV197", "OV198", "OV199", "OV200", "OV201", "OV202", "OV203", "OV204", "OV205", "OV206", "OV207", "OV208", "OV209", "OV210", "OV211", "OV212", "OV213", "OV214", "OV215", "OV216", "OV217", "OV218", "OV219", "OV220", "OV221", "OV222", "OV223", "OV224", "OV225", "OV226", "OV227", "OV228", "OV229", "OV230", "OV231", "OV232", "OV233", "OV234", "OV235", "OV236", "OV237", "OV238", "OV239", "OV240", "OV241", "OV242", "OV243", "OV244", "OV245", "OV246", "OV247", "OV248", "OV249", "OV250", "OV251", "OV252", "OV253", "OV254", "OV255", "OV256", "OV257", "OV258", "OV259", "OV260", "OV261", "OV262", "OV263", "OV264", "OV265", "OV266", "OV267", "OV268", "OV269", "OV270", "OV271", "OV272", "OV273", "OV274", "OV275", "OV276", "OV277", "OV278", "OV279", "OV280", "OV281", "OV282", "OV283", "OV284", "OV285", "OV286", "OV287", "OV288", "OV289", "OV290", "OV291", "OV292", "OV293", "OV294", "OV295", "OV296", "OV297", "OV298", "OV299", "OV300", "OV301", "OV302", "OV303", "OV304", "OV305", "OV306", "OV307", "OV308", "OV309", "OV310", "OV311", "OV312", "OV313", "OV314", "OV315", "OV316", "OV317", "OV318", "OV319", "OV320", "OV321", "OV322", "OV323", "OV324", "OV325", "OV326", "OV327", "OV328", "OV329", "OV330", "OV331", "OV332", "OV333", "OV334", "OV335", "OV336", "OV337", "OV338", "OV339", "OV340", "OV341", "OV342", "OV343", "OV344", "OV345", "OV346", "OV347", "OV348", "OV349", "OV350", "OV351", "OV352", "OV353", "OV354", "OV355", "OV356", "OV357", "OV358", "OV359", "OV360", "OV361", "OV362", "OV363", "OV364", "OV365", "OV366", "OV367", "OV368", "OV369", "OV370", "OV371", "OV372", "OV373", "OV374", "OV375", "OV376", "OV377", "OV378", "OV379", "OV380", "OV381", "OV382", "OV383", "OV384", "OV385", "OV386", "OV387", "OV388", "OV389", "OV390", "OV391", "OV392", "OV393", "OV394", "OV395", "OV396", "OV397", "OV398", "OV399", "OV400", "OV401", "OV402", "OV403", "OV404", "OV405", "OV406", "OV407", "OV408", "OV409", "OV410", "OV411", "OV412", "OV413", "OV414", "OV415", "OV416", "OV417", "OV418", "OV419", "OV420", "OV421", "OV422", "OV423", "OV424", "OV425", "OV426", "OV427", "OV428", "OV429", "OV430", "OV431", "OV432", "OV433", "OV434", "OV435", "OV436", "OV437", "OV438", "OV439", "OV440", "OV441", "OV442", "OV443", "OV444", "OV445", "OV446", "OV447", "OV448", "OV449", "OV450", "OV451", "OV452", "OV453", "OV454", "OV455", "OV456", "OV457", "OV458", "OV459", "OV460", "OV461", "OV462", "OV463", "OV464", "OV465", "OV466", "OV467", "OV468", "OV469", "OV470", "OV471", "OV472", "OV473", "OV474", "OV475", "OV476", "OV477", "OV478", "OV479", "OV480", "OV481", "OV482", "OV483", "OV484", "OV485", "OV486", "OV487", "OV488", "OV489", "OV490", "OV491", "OV492", "OV493", "OV494", "OV495", "OV496", "OV497", "OV498", "OV499", "OV500", "OV501", "OV502", "OV503", "OV504", "OV505", "OV506", "OV507", "OV508", "OV509", "OV510", "OV511", "OV512", "OV513", "OV514", "OV515", "OV516", "OV517", "OV518", "OV519", "OV520", "OV521", "OV522", "OV523", "OV524", "OV525", "OV526", "OV527", "OV528", "OV529", "OV530", "OV531", "OV532", "OV533", "OV534", "OV535", "OV536", "OV537", "OV538", "OV539", "OV540", "OV541", "OV542", "OV543", "OV544", "OV545", "OV546", "OV547", "OV548", "OV549", "OV550", "OV551", "OV552", "OV553", "OV554", "OV555", "OV556", "OV557", "OV558", "OV559", "OV560", "OV561", "LUSC1", "LUSC2", "LUSC3", "LUSC4", "LUSC5", "LUSC6", "LUSC7", "LUSC8", "LUSC9", "LUSC10", "LUSC11", "LUSC12", "LUSC13", "LUSC14", "LUSC15", "LUSC16", "LUSC17", "LUSC18", "LUSC19", "LUSC20", "LUSC21", "LUSC22", "LUSC23", "LUSC24", "LUSC25", "LUSC26", "LUSC27", "LUSC28", "LUSC29", "LUSC30", "LUSC31", "LUSC32", "LUSC33", "LUSC34", "LUSC35", "LUSC36", "LUSC37", "LUSC38", "LUSC39", "LUSC40", "LUSC41", "LUSC42", "LUSC43", "LUSC44", "LUSC45", "LUSC46", "LUSC47", "LUSC48", "LUSC49", "LUSC50", "LUSC51", "LUSC52", "LUSC53", "LUSC54", "LUSC55", "LUSC56", "LUSC57", "LUSC58", "LUSC59", "LUSC60", "LUSC61", "LUSC62", "LUSC63", "LUSC64", "LUSC65", "LUSC66", "LUSC67", "LUSC68", "LUSC69", "LUSC70", "LUSC71", "LUSC72", "LUSC73", "LUSC74", "LUSC75", "LUSC76", "LUSC77", "LUSC78", "LUSC79", "LUSC80", "LUSC81", "LUSC82", "LUSC83", "LUSC84", "LUSC85", "LUSC86", "LUSC87", "LUSC88", "LUSC89", "LUSC90", "LUSC91", "LUSC92", "LUSC93", "LUSC94", "LUSC95", "LUSC96", "LUSC97", "LUSC98", "LUSC99", "LUSC100", "LUSC101", "LUSC102", "LUSC103", "LUSC104", "LUSC105", "LUSC106", "LUSC107", "LUSC108", "LUSC109", "LUSC110", "LUSC111", "LUSC112", "LUSC113", "LUSC114", "LUSC115", "LUSC116", "LUSC117", "LUSC118", "LUSC119", "LUSC120", "LUSC121", "LUSC122", "LUSC123", "LUSC124", "LUSC125", "LUSC126", "LUSC127", "LUSC128", "LUSC129", "LUSC130", "LUSC131", "LUSC132", "LUSC133", "LUSC134", "LUSC135", "LUSC136", "LUSC137", "LUSC138", "LUSC139", "LUSC140", "LUSC141", "LUSC142", "LUSC143", "LUSC144", "LUSC145", "LUSC146", "LUSC147", "LUSC148", "LUSC149", "LUSC150", "LUSC151", "LUSC152", "LUSC153", "LUSC154"],
"vars": ["GATA3", "PTEN", "XBP1"]
}
},
config = {
"boxplotWhiskersType": "single",
"colorBy": "dataset",
"colorScheme": "JCO",
"graphOrientation": "vertical",
"graphType": "Boxplot",
"groupingFactors": ["dataset"],
"histogramBins": 150,
"layoutTopology": "1X3",
"legendColumns": 3,
"legendKeyBackgroundBorderColor": "rgba(255,255,255,0)",
"legendKeyBackgroundColor": "rgba(255,255,255,0)",
"legendPosition": "top",
"legendTextScaleFontFactor": 1.5,
"plotStyle": "open",
"segregateVariablesBy": ["variable"],
"showViolinBoxplot": True,
"smpTextRotate": 90,
"stripBackgroundBorderColor": "rgb(0,0,0)",
"stripTextColor": "rgb(0,0,0)",
"toolbarType": "over",
"xAxis": ["GATA3", "PTEN", "XBP1"]
},
width = 600,
height = 550
)
# Display the chart in its own Web page
show_in_browser(chart)
Run this notebook:
from canvasxpress.canvas import CanvasXpress
from canvasxpress.plot import graph
graph(
CanvasXpress(
render_to = "tcga4",
data = {
"x": {
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"OV414", "OV415", "OV416", "OV417", "OV418", "OV419", "OV420", "OV421", "OV422", "OV423", "OV424", "OV425", "OV426", "OV427", "OV428", "OV429", "OV430", "OV431", "OV432", "OV433", "OV434", "OV435", "OV436", "OV437", "OV438", "OV439", "OV440", "OV441", "OV442", "OV443", "OV444", "OV445", "OV446", "OV447", "OV448", "OV449", "OV450", "OV451", "OV452", "OV453", "OV454", "OV455", "OV456", "OV457", "OV458", "OV459", "OV460", "OV461", "OV462", "OV463", "OV464", "OV465", "OV466", "OV467", "OV468", "OV469", "OV470", "OV471", "OV472", "OV473", "OV474", "OV475", "OV476", "OV477", "OV478", "OV479", "OV480", "OV481", "OV482", "OV483", "OV484", "OV485", "OV486", "OV487", "OV488", "OV489", "OV490", "OV491", "OV492", "OV493", "OV494", "OV495", "OV496", "OV497", "OV498", "OV499", "OV500", "OV501", "OV502", "OV503", "OV504", "OV505", "OV506", "OV507", "OV508", "OV509", "OV510", "OV511", "OV512", "OV513", "OV514", "OV515", "OV516", "OV517", "OV518", "OV519", "OV520", "OV521", "OV522", "OV523", "OV524", "OV525", "OV526", "OV527", "OV528", "OV529", "OV530", "OV531", "OV532", "OV533", "OV534", "OV535", "OV536", "OV537", "OV538", "OV539", "OV540", "OV541", "OV542", "OV543", "OV544", "OV545", "OV546", "OV547", "OV548", "OV549", "OV550", "OV551", "OV552", "OV553", "OV554", "OV555", "OV556", "OV557", "OV558", "OV559", "OV560", "OV561", "LUSC1", "LUSC2", "LUSC3", "LUSC4", "LUSC5", "LUSC6", "LUSC7", "LUSC8", "LUSC9", "LUSC10", "LUSC11", "LUSC12", "LUSC13", "LUSC14", "LUSC15", "LUSC16", "LUSC17", "LUSC18", "LUSC19", "LUSC20", "LUSC21", "LUSC22", "LUSC23", "LUSC24", "LUSC25", "LUSC26", "LUSC27", "LUSC28", "LUSC29", "LUSC30", "LUSC31", "LUSC32", "LUSC33", "LUSC34", "LUSC35", "LUSC36", "LUSC37", "LUSC38", "LUSC39", "LUSC40", "LUSC41", "LUSC42", "LUSC43", "LUSC44", "LUSC45", "LUSC46", "LUSC47", "LUSC48", "LUSC49", "LUSC50", "LUSC51", "LUSC52", "LUSC53", "LUSC54", "LUSC55", "LUSC56", "LUSC57", "LUSC58", "LUSC59", "LUSC60", "LUSC61", "LUSC62", "LUSC63", "LUSC64", "LUSC65", "LUSC66", "LUSC67", "LUSC68", "LUSC69", "LUSC70", "LUSC71", "LUSC72", "LUSC73", "LUSC74", "LUSC75", "LUSC76", "LUSC77", "LUSC78", "LUSC79", "LUSC80", "LUSC81", "LUSC82", "LUSC83", "LUSC84", "LUSC85", "LUSC86", "LUSC87", "LUSC88", "LUSC89", "LUSC90", "LUSC91", "LUSC92", "LUSC93", "LUSC94", "LUSC95", "LUSC96", "LUSC97", "LUSC98", "LUSC99", "LUSC100", "LUSC101", "LUSC102", "LUSC103", "LUSC104", "LUSC105", "LUSC106", "LUSC107", "LUSC108", "LUSC109", "LUSC110", "LUSC111", "LUSC112", "LUSC113", "LUSC114", "LUSC115", "LUSC116", "LUSC117", "LUSC118", "LUSC119", "LUSC120", "LUSC121", "LUSC122", "LUSC123", "LUSC124", "LUSC125", "LUSC126", "LUSC127", "LUSC128", "LUSC129", "LUSC130", "LUSC131", "LUSC132", "LUSC133", "LUSC134", "LUSC135", "LUSC136", "LUSC137", "LUSC138", "LUSC139", "LUSC140", "LUSC141", "LUSC142", "LUSC143", "LUSC144", "LUSC145", "LUSC146", "LUSC147", "LUSC148", "LUSC149", "LUSC150", "LUSC151", "LUSC152", "LUSC153", "LUSC154"],
"vars": ["GATA3", "PTEN", "XBP1"]
}
},
config = {
"boxplotWhiskersType": "single",
"colorBy": "dataset",
"colorScheme": "JCO",
"graphOrientation": "vertical",
"graphType": "Boxplot",
"groupingFactors": ["dataset"],
"histogramBins": 150,
"layoutTopology": "1X3",
"legendColumns": 3,
"legendKeyBackgroundBorderColor": "rgba(255,255,255,0)",
"legendKeyBackgroundColor": "rgba(255,255,255,0)",
"legendPosition": "top",
"legendTextScaleFontFactor": 1.5,
"plotStyle": "open",
"segregateVariablesBy": ["variable"],
"showViolinBoxplot": True,
"smpTextRotate": 90,
"stripBackgroundBorderColor": "rgb(0,0,0)",
"stripTextColor": "rgb(0,0,0)",
"toolbarType": "over",
"xAxis": ["GATA3", "PTEN", "XBP1"]
},
width = 600,
height = 550
)
)
