plotMultiSampleData-CNAclinicData-method: Plots heat map of a cohort of samples
In sdchandra/CNAclinic: A Software Suite for Shallow Sequencing Copy Number Analysis
Description
Usage
Arguments
Value
Examples
Description
Plots heat map of a cohort of samples
Usage
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## S4 method for signature 'CNAclinicData'
plotMultiSampleData(object, geneInfo = NULL,
clusterGenes = FALSE, clusterSamples = FALSE, dataType = "summary",
chromosomesFilter = c("X", "Y", "M", "MT"), outlierLog2R = 6,
showCalls = TRUE, callThreshLog2R = c(-0.15, 0.15), callLegend = FALSE,
legendSize = 12, legendKeySize = 2, legendPosition = "bottom",
legendHoriz = TRUE, lossColor = "orange2", gainColor = "blue",
pointColor = "black", neutralColor = "white", missingColor = "grey20",
xlab = ifelse(is.null(geneInfo), "Chromosome", "Gene"), xaxt = "s",
xaxSize = 10, ylab = NULL, yaxSize = 10, main = NULL, mainSize = 10)
Arguments
object
CNAclinicData.
Value
a ggplot2 object
Examples
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## Not run:
vignette("CNAclinic")
## End(Not run)
sdchandra/CNAclinic documentation built on May 29, 2019, 9:33 a.m.
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Description Usage Arguments Value Examples
Description
Plots heat map of a cohort of samples
Usage
1 2 3 4 5 6 7 8 9 10 | ## S4 method for signature 'CNAclinicData'
plotMultiSampleData(object, geneInfo = NULL,
clusterGenes = FALSE, clusterSamples = FALSE, dataType = "summary",
chromosomesFilter = c("X", "Y", "M", "MT"), outlierLog2R = 6,
showCalls = TRUE, callThreshLog2R = c(-0.15, 0.15), callLegend = FALSE,
legendSize = 12, legendKeySize = 2, legendPosition = "bottom",
legendHoriz = TRUE, lossColor = "orange2", gainColor = "blue",
pointColor = "black", neutralColor = "white", missingColor = "grey20",
xlab = ifelse(is.null(geneInfo), "Chromosome", "Gene"), xaxt = "s",
xaxSize = 10, ylab = NULL, yaxSize = 10, main = NULL, mainSize = 10)
|
Arguments
object |
CNAclinicData. |
Value
a ggplot2 object
Examples
1 2 3 4 | ## Not run:
vignette("CNAclinic")
## End(Not run)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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