Reinharz's

Computational Biology and Evolution lab.

Software and Web servers

• CaRNAval2-alpha
  In development, organized collection of RNA Recurrent Interaction Networks (RIN), can annotate any structure file.
• FASTiso (2025)
  Fast isomorphism, in C++ and python
• PASIGraph (2025)
  Parallel computing of all maximal subgraph isomorphism
• RNA-MoIP2 (2024)
  Prediction of local 3D motifs from RNA secondary structure predictions.
• FuzzTree (2023)
  Fuzzy maching of subgraphs with explicit controle over insertion, 3D distance, and isostericity
• BayesPairing (2020)
  Automatic identification of 3D structural modules in RNA sequences.
• IncaRNAfbinv (2020)
  Fragment-based design of RNA sequences.
• CaRNAval (deprecated)
  Organized collection of RNA Recurrent Interaction Networks (RIN), can annotate any structure file.
• RNAmigos (2020)
  Predict a small molecule binding profile (molecular fingerprint) given an RNA base-pairing pattern.
• RNA-MoIP (deprecated)
  Prediction of local 3D motifs from RNA secondary structure predictions.
• aRNhAck (2016)
  Prediction of RNA-binding interfaces using SHAPE data and MSA.
• achARNement (2016)
  Reconstruction of ancestral RNA sequences under multiple structural constraints.
• IncaRNAtion (2013)
  Design of RNA sequences folding into target secondary structures with nucleotide distribution.
• RNApyro (2013)
  Error-correction of RNA sequencing data using secondary structure information.