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Enhancer Linking by Methylation/Expression Relationship (ELMER) is package to identify tumor-specific changes in DNA methylation within distal enhancers, and link these enhancers to downstream target genes

tiagochst/ELMER

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DOI

An R/Bioconductor Tool Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Methylomes

Citing ELMER

Tiago C Silva, Simon G Coetzee, Nicole Gull, Lijing Yao, Dennis J Hazelett, Houtan Noushmehr, De-Chen Lin, Benjamin P Berman; ELMER v.2: an R/Bioconductor package to reconstruct gene regulatory networks from DNA methylation and transcriptome profiles, Bioinformatics, , bty902, https://doi.org/10.1093/bioinformatics/bty902

Main article

https://doi.org/10.1093/bioinformatics/bty902

Installing and loading ELMER

To obtain a copy of ELMER, you will need to install devtools and ELMER.data which contains essential data for running ELMER package

install.packages(devtools)
library(devtools);
devtools::install_github("tiagochst/ELMER.data");
devtools::install_github("tiagochst/ELMER");

Documentation

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Enhancer Linking by Methylation/Expression Relationship (ELMER) is package to identify tumor-specific changes in DNA methylation within distal enhancers, and link these enhancers to downstream target genes

http://bioconductor.org/packages/ELMER/

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