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

Bioconductor version: Release (3.19)

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], David Chen [aut], Parisa Shooshtari [aut]

Maintainer: Erik Christensen <echris3 at>

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


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

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


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:

TMExplorer HTML R Script
Reference Manual PDF


biocViews CancerData, ExperimentData, ExpressionData, GEO, PackageTypeData, RNASeqData, SequencingData, SingleCellData
Version 1.14.0
License Artistic-2.0
Depends R (>= 4.1), SingleCellExperiment, BiocFileCache
Imports methods, Matrix
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Suggests BiocStyle, knitr, rmarkdown
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Follow Installation instructions to use this package in your R session.

Source Package TMExplorer_1.14.0.tar.gz
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