emtdata
An ExperimentHub Package for data sets with an Epithelial to Mesenchymal Transition (EMT)
Bioconductor version: 3.23 · Package version: 1.20.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
This package provides pre-processed RNA-seq data where the epithelial to mesenchymal transition was induced on cell lines. These data come from three publications Cursons et al. (2015), Cursons etl al. (2018) and Foroutan et al. (2017). In each of these publications, EMT was induces across multiple cell lines following treatment by TGFb among other stimulants. This data will be useful in determining the regulatory programs modified in order to achieve an EMT. Data were processed by the Davis laboratory in the Bioinformatics division at WEHI.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("emtdata")Details
| Maintainer | Malvika D. Kharbanda <kharbanda.m@wehi.edu.au> |
| Author | Malvika D. Kharbanda [aut, cre] (ORCID: <https://orcid.org/0000-0001-9726-3023>), Chin Wee Tan [aut] (ORCID: <https://orcid.org/0000-0001-9695-7218>), Dharmesh D. Bhuva [aut] (ORCID: <https://orcid.org/0000-0002-6398-9157>) |
| License | GPL-3 |
| URL | https://github.com/DavisLaboratory/emtdata |
| Bug Reports | https://github.com/DavisLaboratory/emtdata/issues |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, RNASeqData |
| Package Short Url | https://bioconductor.org/packages/emtdata/ |
Citation
From within R, enter citation("emtdata"):
Malvika D. Kharbanda, Chin Wee Tan, Dharmesh D. Bhuva. emtdata: An ExperimentHub Package for data sets with an Epithelial to Mesenchymal Transition (EMT). doi:10.18129/B9.bioc.emtdata, R package version 1.20.0, https://bioconductor.org/packages/emtdata.
Generated from the package metadata; it may differ from the package's own citation.
Download
Follow the installation instructions to use this package in your R session.
| Source package | emtdata_1.20.0.tar.gz |
Dependencies
Depends: R (>= 4.1)
Imports: edgeR, ExperimentHub, SummarizedExperiment
Suggests: testthat (>= 3.0.0), stringr, plyr, prettydoc, BiocStyle, Homo.sapiens, RColorBrewer, rmarkdown, BiocFileCache, knitr