kmcut
Optimized Kaplan Meier analysis and identification and validation of prognostic biomarkers
Bioconductor version: Release (3.20)
The purpose of the package is to identify prognostic biomarkers and an optimal numeric cutoff for each biomarker that can be used to stratify a group of test subjects (samples) into two sub-groups with significantly different survival (better vs. worse). The package was developed for the analysis of gene expression data, such as RNA-seq. However, it can be used with any quantitative variable that has a sufficiently large proportion of unique values.
Author: Igor Kuznetsov [aut, cre], Javed Khan [aut]
Maintainer: Igor Kuznetsov <ibkalb at gmail.com>
citation("kmcut")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("kmcut")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("kmcut")| kmcut_intro | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneExpression, Software, StatisticalMethod, Survival |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.20 (R-4.4) (< 6 months) |
| License | Artistic-2.0 |
| Depends | |
| Imports | survival, tools, methods, pracma, doParallel, foreach, parallel, SummarizedExperiment, S4Vectors |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | kmcut_1.0.0.tar.gz |
| Windows Binary (x86_64) | kmcut_1.0.0.zip |
| macOS Binary (x86_64) | kmcut_1.0.0.tgz |
| macOS Binary (arm64) | kmcut_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/kmcut |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/kmcut |
| Bioc Package Browser | https://code.bioconductor.org/browse/kmcut/ |
| Package Short Url | https://bioconductor.org/packages/kmcut/ |
| Package Downloads Report | Download Stats |