getCytobandSummary: extract cytoband summary from GISTIC object
In thesushantpatil/maftools: Summarize, Analyze and Visualize MAF Files
Description
Usage
Arguments
Value
Examples
Description
extract cytoband summary from GISTIC object
Usage
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getCytobandSummary(x)
## S4 method for signature 'GISTIC'
getCytobandSummary(x)
Arguments
x
An object of class GISTIC
Value
summarizied gistic results by altered cytobands.
Examples
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all.lesions <- system.file("extdata", "all_lesions.conf_99.txt", package = "maftools")
amp.genes <- system.file("extdata", "amp_genes.conf_99.txt", package = "maftools")
del.genes <- system.file("extdata", "del_genes.conf_99.txt", package = "maftools")
scores.gistic <- system.file("extdata", "scores.gistic", package = "maftools")
laml.gistic = readGistic(gisticAllLesionsFile = all.lesions, gisticAmpGenesFile = amp.genes, gisticDelGenesFile = del.genes, gisticScoresFile = scores.gistic)
getCytobandSummary(laml.gistic)
thesushantpatil/maftools documentation built on May 18, 2020, 9:54 p.m.
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Description Usage Arguments Value Examples
Description
extract cytoband summary from GISTIC object
Usage
1 2 3 4 | getCytobandSummary(x)
## S4 method for signature 'GISTIC'
getCytobandSummary(x)
|
Arguments
x |
An object of class GISTIC |
Value
summarizied gistic results by altered cytobands.
Examples
1 2 3 4 5 6 | all.lesions <- system.file("extdata", "all_lesions.conf_99.txt", package = "maftools")
amp.genes <- system.file("extdata", "amp_genes.conf_99.txt", package = "maftools")
del.genes <- system.file("extdata", "del_genes.conf_99.txt", package = "maftools")
scores.gistic <- system.file("extdata", "scores.gistic", package = "maftools")
laml.gistic = readGistic(gisticAllLesionsFile = all.lesions, gisticAmpGenesFile = amp.genes, gisticDelGenesFile = del.genes, gisticScoresFile = scores.gistic)
getCytobandSummary(laml.gistic)
|
R Package Documentation
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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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