PrecisionTrialDrawer-package: PrecisionTrialDrawer: a package to analyze and design custom...
In gmelloni/PrecisionTrialDrawer: A Tool to Analyze and Design NGS Based Custom Gene Panels
PrecisionTrialDrawer-package R Documentation
PrecisionTrialDrawer: a package to analyze and design custom cancer panels
Description
PrecisionTrialDrawer is a package that a allows
the design and study of a cancer panel
to create pilot sets for a clinical trial.
Details
It allows simulations on real TCGA data to design a possible clinical trial,
both as basket or umbrella design.
Furthermore, it can provide an easy function to
calculate genomic space occupied by the cancer
panel in a commonly used bed format
ready to be submitted to a NGS company.
Author(s)
Giorgio Melloni, Alessandro Guida
References
Cbioportal web site
MD Anderson TCGA Fusion Portal
Examples
# Retrieve a Cancer Panel
data(cpObj)
# Show the number of covered samples
coveragePlot(cpObj
, alterationType=c("mutations" , "copynumber")
, grouping=c("group" , "tumor_type"))
gmelloni/PrecisionTrialDrawer documentation built on March 4, 2023, 1:48 a.m.
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| PrecisionTrialDrawer-package | R Documentation |
PrecisionTrialDrawer: a package to analyze and design custom cancer panels
Description
PrecisionTrialDrawer is a package that a allows the design and study of a cancer panel to create pilot sets for a clinical trial.
Details
It allows simulations on real TCGA data to design a possible clinical trial, both as basket or umbrella design.
Furthermore, it can provide an easy function to calculate genomic space occupied by the cancer panel in a commonly used bed format ready to be submitted to a NGS company.
Author(s)
Giorgio Melloni, Alessandro Guida
References
Cbioportal web site MD Anderson TCGA Fusion Portal
Examples
# Retrieve a Cancer Panel
data(cpObj)
# Show the number of covered samples
coveragePlot(cpObj
, alterationType=c("mutations" , "copynumber")
, grouping=c("group" , "tumor_type"))
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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