RiskyCNV: Risk Analysis of Genomic Copy Number Variation

Provides a complete seven-step workflow for copy number variation (CNV) analysis applicable to any disease or condition where samples with genomic copy number data is available. Supports built-in grading and risk stratification presets for seven major cancers (viz. prostate, breast, colorectal, lung, cervical, lymphoma, melanoma) based on clinically validated systems including ISUP Grade Groups, Nottingham Grading System, Dukes staging, IASLC TNM, FIGO, Ann Arbor/Lugano classification, and Breslow depth. Generalizable to other disease types. An automatic mode derives a normalised Risk Score from the data using min-max normalisation and adaptive binning. Custom user-defined thresholds are supported for any other disease type. Downstream functions for CNV aberration detection, recurrence analysis, gene annotation, CNV matrix generation, and CNV-RNA expression correlation are disease-type agnostic.

Version:	0.1.0
Depends:	R (≥ 4.1.0)
Imports:	dplyr, GenomicRanges, rlang, S4Vectors, stats, tidyr, tools, utils
Suggests:	BiocManager, knitr, rmarkdown, testthat (≥ 3.0.0)
Published:	2026-06-05
DOI:	10.32614/CRAN.package.RiskyCNV (may not be active yet)
Author:	Ashok Palaniappan [aut, cre], Priyanka Ramesh [aut], Ida Titus [aut], Sangeetha Muthamilselvan [aut]
Maintainer:	Ashok Palaniappan <apalania at scbt.sastra.edu>
License:	MIT + file LICENSE
NeedsCompilation:	no
CRAN checks:	RiskyCNV results

Documentation:

Reference manual:	RiskyCNV.html , RiskyCNV.pdf
Vignettes:	RiskyCNV: A Prostate Cancer Case Study Using TCGA-PRAD Data (source, R code)

Downloads:

Package source:	RiskyCNV_0.1.0.tar.gz
Windows binaries:	r-devel: not available, r-release: not available, r-oldrel: not available
macOS binaries:	r-release (arm64): RiskyCNV_0.1.0.tgz, r-oldrel (arm64): not available, r-release (x86_64): not available, r-oldrel (x86_64): not available

Linking:

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