Query regarding DNA Methylation Bisulfite Sequencing data analysis

Question

[Pankaj]

Hi, I am working on DNA Methylation Bisulfite Sequencing data analysis using methylkit and genomation. I am facing an issue while annotating my differentially methylated gene data using annotatewithGeneparts function from genomation.

Actually, the number of rows/entries in dist.to.tss sheet and members are different. I am getting around 1k less entries in dist.to.tss than member's sheet.

When fetching the CpGi and shore information, again I am getting 1k more entries (same as members sheet) than dist.to.tss.

Please help me solve this and please tell me the reason, why is it happening?

Thanks, and best regards!