readBismark {DMRcaller} | R Documentation |
This function takes as input a CX report file produced by Bismark
and returns a GRanges
object with four metadata columns
The file represents the bisulfite sequencing methylation data.
readBismark(file)
file |
The filename (including path) of the methylation (CX report generated by Bismark) to be read. |
the methylation data stored as a GRanges
object with four metadata columns (see methylationDataList
).
Nicolae Radu Zabet and Jonathan Michael Foonlan Tsang
# load methylation data object data(methylationDataList) # save the one datasets into a file saveBismark(methylationDataList[["WT"]], "chr3test_a_thaliana_wt.CX_report") # load the data methylationDataWT <- readBismark("chr3test_a_thaliana_wt.CX_report") #check that the loading worked all(methylationDataWT == methylationDataList[["WT"]])