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:
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