Hi I have modifications on RNAs and also have their predicted structures. Is there any tool that can map the modifications to structure (to see whether the modifications fall on the paired or the unpaired regions)? Thank you
my modifications data is in the bed format. yes, that's the end goal, to identify which modifications correspond to paired and which correspond to unpaired nucleotides. So, I want to know how I can do that. Is there a software?My structures data is in the form of .ct files.
Any suggestions or help will be highly appreciated. Thank you!
I have modifications as bedfiles and have structure as .dot bracket format Dot bracket format is as below ...((((......)))).... Somewhat like the above each dot and each bracket corresponds to either A,C,G or T So also a .ct file has a number that corresponds to to the bases. So I have modifications in bed file and structure as dot bracket notations. I am looking at how I can map the modifications to structure to see if the modifications are on the paired or the unpaired regions of my RNA. How can I do it in python? Any suggestions are welcome. Thank you!