cfToolsData

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18

ExperimentHub data for the cfTools package

Bioconductor version: Development (3.24)

The cfToolsData package supplies the data for the cfTools package. It contains two pre-trained deep neural network (DNN) models for the cfSort function. Additionally, it includes the shape parameters of beta distribution characterizing methylation markers associated with four tumor types for the CancerDetector function, as well as the parameters characterizing methylation markers specific to 29 primary human tissue types for the cfDeconvolve function.

Author: Ran Hu [aut, cre] ORCID: 0000-0002-0563-8957 , Shuo Li [aut] ORCID: 0000-0002-1960-6016 , Xianghong Jasmine Zhou [aut] ORCID: 0000-0002-4522-7490 , Wenyuan Li [aut] ORCID: 0000-0002-5029-8525

Maintainer: Ran Hu <huran at ucla.edu>

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

Ran Hu, Shuo Li, Xianghong Jasmine Zhou, Wenyuan Li. cfToolsData: ExperimentHub data for the cfTools package. doi:10.18129/B9.bioc.cfToolsData, R package version 1.11.0, https://bioconductor.org/packages/cfToolsData.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("cfToolsData")

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("cfToolsData")

cfToolsData	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	CancerData, DiseaseModel, ExperimentData, ExperimentHub, ReproducibleResearch, Tissue
Version	1.11.0
In Bioconductor since	BioC 3.18 (R-4.3) (3 years)
License	file LICENSE
Depends	R (>= 4.3.0)
Imports	utils, ExperimentHub
System Requirements
URL	https://github.com/jasminezhoulab/cfToolsData
Bug Reports	https://github.com/jasminezhoulab/cfToolsData/issues

Suggests	BiocStyle, knitr, rmarkdown, ExperimentHubData, testthat (>= 3.0.0)
Linking To
Enhances
Depends On Me
Imports Me	cfTools
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	cfToolsData_1.11.0.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/cfToolsData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/cfToolsData
Package Short Url	https://bioconductor.org/packages/cfToolsData/
Package Downloads Report	Download Stats