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[helix-based] context-sensitive helix-based predictions

Open martin-raden opened this issue 6 years ago • 1 comments

given the helix-based RNA-RNA interaction prediction mode, we want to apply context-sensitive length constraints.

needed:

  • HelixHandler wrapper for length-constrained helices
  • AccessibilityVRNA subclass that stores context-dependent ED values
  • Meta-Predictor to predict for exterior/interior unpaired context

contact: Rick Gelhausen Martin Raden

martin-raden avatar Feb 23 '19 10:02 martin-raden

related: https://genomebiology.biomedcentral.com/articles/10.1186/gb-2014-15-1-r16

CapR: revealing structural specificities of RNA-binding protein target recognition using CLIP-seq data

martin-raden avatar Feb 23 '19 13:02 martin-raden