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I have used the QSEA package for my MEDIP-data analysis I want to extract the normalized counts to perform correlation analysis with an expression dataset. I am not able to get the relevant information from the qsea object. I did come across the getCounts() function. but that just gives the raw counts of the samples, with no specific window regions mentioned. Kindly guide me regarding the same.
If you need specific counts for defined regions or windows, you may want to explore other functions or slots within the QSEA object that could provide this information. Check the documentation for functions that might allow for extracting data by specific regions.