Bigmelon: tools for analysing large DNA methylation datasets.

ABSTRACT:

Motivation

The datasets generated by DNA methylation analyses are getting bigger. With the release of the HumanMethylationEPIC micro-array and datasets containing thousands of samples, analyses of these large datasets using R are becoming impractical due to large memory requirements. As a result there is an increasing need for computationally efficient methodologies to perform meaningful analysis on high dimensional data.

Results

Here we introduce the bigmelon R package, which provides a memory efficient workflow that enables users to perform the complex, large scale analyses required in epigenome wide association studies (EWAS) without the need for large RAM. Building on top of the CoreArray Genomic Data Structure file format and libraries packaged in the gdsfmt package, we

SUBMITTER: Gorrie-Stone TJ 

PROVIDER: S-EPMC6419913 | biostudies-literature | 2019 Mar

REPOSITORIES: biostudies-literature