Introduction | Exploring available datasets | Searching by year | Getting datasets | Example: Returning all datasets with cell-type labels | Example: Returning all datasets with cell-type labels and cell-type gene signatures | Saving Data | Session Information
Package: TMExplorer 1.22.0
Erik Christensen
TMExplorer: A Collection of Tumour Microenvironment Single-cell RNA Sequencing Datasets and Corresponding Metadata
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.
Authors:
TMExplorer_1.22.0.tar.gz
TMExplorer_1.22.0.tar.gz(r-4.7-any)TMExplorer_1.22.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
TMExplorer/json (API)
| # Install 'TMExplorer' in R: |
| install.packages('TMExplorer', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/shooshtarilab/tmexplorer/issues
On BioConductor:TMExplorer-1.23.0(data/experiment 3.24)TMExplorer-1.22.0(data/experiment 3.23)
cancerdatasinglecelldatarnaseqdatasequencingdataexpressiondatageopackagetypedatacancerscrna-seqtumor-microenvironmenttumour-microenvironmentdatapkg
Last updated from:d9904e973e (on RELEASE_3_23). Checks:1 NOTE, 3 OK. Indexed: no.
This is a data package. Data packages may be large and do not get checked across all platforms.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 150 | ||
| linux-devel | OK | 350 | ||
| source / vignettes | OK | 226 | ||
| linux-release | OK | 350 |
Dependencies:abindaskpassBiobaseBiocFileCacheBiocGenericsbitbit64blobcachemclicpp11curlDBIdbplyrDelayedArraydplyrfastmapfilelockgenericsGenomicRangesgluehttr2IRangeslatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoiseopensslpillarpkgconfigpurrrR6rlangRSQLiteS4ArraysS4VectorsSeqinfoSingleCellExperimentSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselectutf8vctrswithrXVector
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| A function to query TME datasets available in this package | queryTME |
| A function to save a TME dataset | saveTME |
