Introduction

We introduce RNAshapes, a new software package that integrates three RNA analysis tools based on the abstract shapes approach: the analysis of shape representatives, the calculation of shape probabilities and the consensus shapes approach. This new package is completely reimplemented in C and outruns the original implementations significantly in runtime and memory requirements. Additionally, we added a number of useful features like suboptimal folding with correct dangling energies, structure graph output, shape matching and a sliding window approach.

Publications

  1. RNAshapes: an integrated RNA analysis package based on abstract shapes.
    Cite this
    Steffen P, Voss B, Rehmsmeier M, Reeder J, Giegerich R, 2006-02-01 - Bioinformatics (Oxford, England)

Credits

  1. Peter Steffen
    Developer

  2. Björn Voss
    Developer

  3. Marc Rehmsmeier
    Developer

  4. Jens Reeder
    Developer

  5. Robert Giegerich
    Investigator

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Summary
AccessionBT000068
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
Download Count0
Submitted ByRobert Giegerich