We are conducting a nanoSHAPE experiment and have been able to process our RNA-002 data through Tombo. We are now trying to follow the steps described in the associated paper to generate reactivity profiles for each Aclm condition, however we are unsure how to go from “percentage profile” to normalised reactivity profile. I read the cited paper that describes ShapeMapper, and subsequently came across the GitHub repository for ShapeMapper2 where reactivity normalisation is described. If you could supply example commands in order to do these steps, we would be very grateful.
We are conducting a nanoSHAPE experiment and have been able to process our RNA-002 data through Tombo. We are now trying to follow the steps described in the associated paper to generate reactivity profiles for each Aclm condition, however we are unsure how to go from “percentage profile” to normalised reactivity profile. I read the cited paper that describes ShapeMapper, and subsequently came across the GitHub repository for ShapeMapper2 where reactivity normalisation is described. If you could supply example commands in order to do these steps, we would be very grateful.