emtdata
This is thereleased version of emtdata; for the devel version, seeemtdata.
An ExperimentHub Package for data sets with an Epithelial to Mesenchymal Transition (EMT)
Bioconductor version: Release (3.22)
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.
Author: Malvika D. Kharbanda [aut, cre]
ORCID: 0000-0001-9726-3023, Chin Wee Tan [aut] ORCID: 0000-0001-9695-7218, Dharmesh D. Bhuva [aut] ORCID: 0000-0002-6398-9157
Maintainer: Malvika D. Kharbanda <kharbanda.m at wehi.edu.au>
citation("emtdata")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("emtdata")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("emtdata")| emtdata | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ExperimentData,ExperimentHub,ExpressionData,Homo_sapiens_Data,RNASeqData |
| Version | 1.18.0 |
| License | GPL-3 |
| Depends | R (>= 4.1) |
| Imports | edgeR,ExperimentHub,SummarizedExperiment |
| System Requirements | |
| URL | https://github.com/DavisLaboratory/emtdata |
| Bug Reports | https://github.com/DavisLaboratory/emtdata/issues |
See More
| Suggests | testthat (>= 3.0.0),stringr,plyr,prettydoc,BiocStyle,Homo.sapiens,RColorBrewer,rmarkdown,BiocFileCache,knitr |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | emtdata_1.18.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/emtdata |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/emtdata |
| Package Short Url | https://bioconductor.org/packages/emtdata/ |
| Package Downloads Report | Download Stats |