Does anyone know of any programs or R packages to plot MBD-seq methylation status results like this? Thanks!
I'm using the R package MEDIPS for my analysis.
The deepTools package can do things like this
You would prepare coverage files in the form of bigwigs with computeMatrix
Converting aligned reads to bigwig is generally done from things like macs, which automatically makes wig files, or bedtools genomecov which creates a bedgraph file from a inputted bam, and then run bedGraphToBigWig
Very helpful, thanks! I wonder if you'd also know what package to use for performing GO annotations on MEDIPS results? I'd like to do GO annotations so I can visualize the results with clusterProfiler.
Login before adding your answer.
Use of this site constitutes acceptance of our User Agreement and Privacy