Hello everyone. So I received RRBS data that had been worked on to a certain level and I am looking to perform a differential methylation analysis and also try to correlate the methylation difference to gene expression. I have been struggling to find the right tool to use because the data format does not seem to fit any of the tools I have read about so far. My data has column headers that look like this RankByChr+Pos , Gene stable ID , Gene name, Gene start (bp) ,Gene end (bp) Strand , ,CpG_ChromosomeX=23Y=24, RelativePositionCpG_vs_Gene, CpGPositionOutsideGene,CpGPositionInsideGene ,CpG_Chromosome, CpG_Position ,MedianRNA_DC MedianRNA_HC The rest of the column headers are my different samples and the methylation calls. I am entirely lost as to which software the methylation calling was done from and stuck trying to figure out how to proceed.
