Intermediate tabular data for "Comparing methylation levels assayed in GC-rich regions with current and emerging methods"

This collection contains data to support the analyses carried out in the manuscript "Assaying methylation levels in GC-rich regions with EM-seq, WGBS, Infinium arrays and ONT direct sequencing", which is in a format and size that is not easily made available via other public repositories.\n\nThis collection does NOT include any code. Please refer to the manuscript for code availability.\nLineage: Briefly, there are three sets of tables within this collection. All data was generated from the same biosamples, as we wanted to understand the differences arising from using different methods to assay methylation levels ("beta values"). None of the tables contain any genetic information, only epigenetic information.\n\nThe first set of tables are from the EM-seq/WGBS (Enzymatic Methylation-Seq / whole genome bisulphite sequencing) experiments, processed from Illumina short-read sequencing data. The tables contain beta values from ~28.7 million CpGs.\n\nThe second set of tables are from the Illumina Infinium platform, the MethylationEPIC arrays. The tables contain processed and batch-corrected beta values from > 850,000 CpGs.\n\nThe last set of tables are from ONT sequencing. These tables are BED files produced by ONT's methylation caller, Megalodon, containing betas from ~6,000 CpGs.\n\nRefer to associated manuscript for detailed methods that produced the data here.