TMExplorer

DOI: 10.18129/B9.bioc.TMExplorer    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see TMExplorer.

A Collection of Tumour Microenvironment Single-cell RNA Sequencing Datasets and Corresponding Metadata

Bioconductor version: 3.13

This package provides a tool to search and download a collection of tumour microenvironment single-cell RNA sequencing datasets and their metadata. TMExplorer aims to act as a single point of entry for users looking to study the tumour microenvironment at the single cell level. Users can quickly search available datasets using the metadata table and then download the ones they are interested in for analysis.

Author: Erik Christensen [aut, cre], Alaine Naidas [aut], Parisa Shooshtari [aut]

Maintainer: Erik Christensen <echris3 at uwo.ca>

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("TMExplorer")

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("TMExplorer")

 

HTML	R Script	TMExplorer
PDF		Reference Manual
Text		NEWS

Details

biocViews	CancerData, ExperimentData, ExpressionData, GEO, PackageTypeData, RNASeqData, SequencingData, SingleCellData
Version	1.2.1
License	Artistic-2.0
Depends	R (>= 4.1), SingleCellExperiment, BiocFileCache
Imports	methods, Matrix
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL
BugReports	https://github.com/shooshtarilab/TMExplorer/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	TMExplorer_1.2.1.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Source Repository	git clone https://git.bioconductor.org/packages/TMExplorer
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/TMExplorer
Package Short Url	https://bioconductor.org/packages/TMExplorer/
Package Downloads Report	Download Stats