Registration Open for Bioc2024 July 24-26


This is the development version of TOP; for the stable release version, see TOP.

TOP Constructs Transferable Model Across Gene Expression Platforms

Bioconductor version: Development (3.20)

TOP constructs a transferable model across gene expression platforms for prospective experiments. Such a transferable model can be trained to make predictions on independent validation data with an accuracy that is similar to a re-substituted model. The TOP procedure also has the flexibility to be adapted to suit the most common clinical response variables, including linear response, binomial and Cox PH models.

Author: Harry Robertson [aut, cre] , Nicholas Robertson [aut]

Maintainer: Harry Robertson <harry.robertson at>

Citation (from within R, enter citation("TOP")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Introduction to TOP HTML R Script
Reference Manual PDF


biocViews GeneExpression, Software, Survival
Version 1.5.0
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License GPL-3
Depends R (>= 3.5.0)
Imports assertthat, caret, ClassifyR, directPA, doParallel, dplyr, ggnewscale, ggplot2, ggraph, ggrepel, ggthemes, glmnet, Hmisc, igraph, latex2exp, limma, magrittr, methods, plotly, pROC, purrr, reshape2, stats, stringr, survival, tibble, tidygraph, tidyr, statmod
System Requirements
Bug Reports
See More
Suggests knitr, rmarkdown, BiocStyle, Biobase, curatedOvarianData, ggbeeswarm, ggsci, survminer, tidyverse
Linking To
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 TOP_1.5.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) TOP_1.5.0.tgz
macOS Binary (arm64) TOP_1.5.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats