BiBiServ Logo
Attention:
Due to technical maintenance some tools might be unavailable.
See maintenance information.
BiBiServ -
                                    Bielefeld         University Bioinformatic Service
Tools
Education
Administration
Tools
Genome Comparison
Gecko
REPuter
...more
Alignments
PoSSuMsearch2
ChromA
...more
Primer Design
GeneFisher2
RNA Studio
RNAshapes
KnotInFrame
RNAhybrid
...more
Evolutionary Relationship
ROSE
...more
Others
XenDB
jPREdictor
...more

RNA Studio

  • GUUGle GUUGle

    A utility for fast exact matching under RNA base pairing rules

  • InSilicoDicer Prediction of mature miRNA.

    Intrinsic and Extrinsic Prediction of mature miRNA.

  • KnotInFrame Prediction of -1 ribosomal frameshifts

    KnotInFrame is a tool for predicting -1 ribosomal frameshifts with simple recursive pseudoknots as stimulating structural motif in mRNAs by means of the tool pknotsRG for the folding of the pseudoknots.

  • Locomotif Localization of RNA motifs with generated thermodynamic Matchers

    A graphical programming system for RNA motif search.

  • paRNAss Prediction of Alternate RNA Secondary Structures

    paRNAss is a software tool aiming to predict conformational switching in RNA.

  • pKiss

    pKiss is a tool for secondary structure prediction including kissing hairpin motifs.

  • pknotsRG RNA folding and thermodynamic matching

    pknotsRG is a tool for folding RNA secondary structures, including the class of simple recursive pseudoknots.

  • planACstar Implementation of Plan AC*

    planACstar is an implementation of plan AC* that improves structural RNA alignments by structure comparison

  • RapidShapes RapidShapes

    RapidShapes computes the shapes above a specified probability threshold T by generating a list of promising shapes and constructing specialized folding programs for each shape to compute its probability. This aims at a heuristic improvement of runtime, while still computing exact probability values.

  • RNA Movies

    RNA Movies is a system for the visualization of RNA secondary structure landscapes. Its input is a script consisting of structures from which animated graphical structure representations are generated. In this way, it creates the impression of an RNA-molecule moving through its own 2D structure space.

  • RNAcast RNA consensus abstract shapes technique

    RNAcast (RNA consensus abstract shapes technique) is an alternative to the Sankoff algorithm for multiple RNA folding.

  • RNAfold calculate secondary structures of RNAs

    RNA folding tool of the vienna RNA package.

  • RNAforester

    RNA Forester is an alignment tool for RNA secondary structures. It is suitable for global comparision of RNA secondary structures and for finding similar regions between them.

  • RNAforester2

    RNA Forester is an alignment tool for RNA secondary structures. It is suitable for global comparision of RNA secondary structures and for finding similar regions between them.

  • RNAhybrid

    RNAhybrid is a tool for finding the minimum free energy hybridisation of a long and a short RNA.

  • RNAshapes

    RNAshapes offers three RNA analysis tools in one single software package: computation of a small set of representative structures of different shapes, computation of shape probabilities, and comparative prediction of consensus structures.

  • RNAsifter RNA Shape Index Filter

    Searching and classifying non-coding RNAs with Rfam covariance models is currently considered ideal, but slow. RNAsifter is a structure-based filtering technique employing a pre-computed index of structural abstractions called shapes. Since RNAs are characterized by structure more than by sequence, our method is more sensible than sequence-based filters.

Tue Jan 15 15:52:37 2013