Processed data for Improved circulating tumor DNA profiling by simultaneous extraction of DNA methylation and copy number information from MeD-seq

This dataset contains all processed data used in the manuscript titled “Improved circulating tumor DNA profiling by simultaneous extraction of DNA methylation and copy number information from Methylated DNA Sequencing data (MeD-seq)”. It includes: Copy number profiles inferred from MeD-seq background reads Methylated read count matrices across CpG islands Differentially methylated region (DMR) profiles Tumor fraction (TF) estimates Reference files required for analysis R objects used to generate all figures and results in the study Raw sequencing data are not included due to privacy and size limitations. Corresponding GitHub repository with all analysis code: https://github.com/daanhazelaar/med-seq-ctDNA-profiling