DeepBlueR: large-scale epigenomic analysis in R.
BACKGROUND
While large amounts of epigenomic data are publicly available, their retrieval in a form suitable for downstream analysis is a bottleneck in current research. The DeepBlue Epigenomic Data Server provides a powerful interface and API for filtering, transforming, aggregating and downloading data from several epigenomic consortia.


RESULTS
To make public epigenomic data conveniently available for analysis in R, we developed an R/Bioconductor package that connects to the DeepBlue Epigenomic Data Server, enabling users to quickly gather and transform epigenomic data from selected experiments for analysis in the Bioconductor ecosystem.


METHODS
http://deepblue.mpi-inf.mpg.de/R .


METHODS
R 3.3, Bioconductor 3.4.


BACKGROUND
felipe.albrecht@mpi-inf.mpg.de or markus.list@mpi-inf.mpg.de.


BACKGROUND
Supplementary data are available at Bioinformatics online.
Max Planck Institute for Informatics.|Graduate School of Computer Science, Saarland Informatics Campus, 66123 Saarbrücken, Germany.
Felipe
F
Albrecht
Max Planck Institute for Informatics.
Markus
M
List
Max Planck Institute for Informatics.|CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences.|Department of Laboratory Medicine, Medical University of Vienna, 1090 Vienna, Austria.
Christoph
C
Bock
Max Planck Institute for Informatics.
Thomas
T
Lengauer
D057890:Epigenomics / Q000379:methods*; D006801:Humans; D012984:Software