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    13 repositories

    • Datasets

      Public
      0•0•0•0•Updated Nov 19, 2024Nov 19, 2024

    • pmfe2023

      Public
      Generate the branching polytope for a specified RNA sequence
      C++
      •2•0•2•0•Updated Oct 9, 2024Oct 9, 2024

    • pmfe

      Public
      Generate the branching polytope for a specified RNA sequence
      C++
      •2•1•13•2•Updated Sep 12, 2023Sep 12, 2023

    • RNAprofilingV2

      Public
      rnarna-structure-prediction
      Python
      •
      GNU General Public License v2.0
      •1•1•0•0•Updated Mar 19, 2023Mar 19, 2023

    • GTFoldPython

      Public template
      Python bindings to use the historical GTFold library natively in the RNADB construction script and natively with Python3. See the WIKI pages for documentation and installation notes.
      pythonpython-librarypython3python-bindingsrna-seq-analysisrna-structure-prediction
      C
      •
      GNU General Public License v3.0
      •0•1•5•0•Updated Jun 21, 2022Jun 21, 2022

    • homebrew-core

      Public
      🍻 Taps of requirements for gtDMMB software on Mac OSX
      Ruby
      •
      BSD 2-Clause "Simplified" License
      •12k•0•0•0•Updated Jun 2, 2022Jun 2, 2022

    • RNAStructViz

      Public
      Visualization, comparison, and analysis of RNA secondary structures via a cross-platform GUI
      C
      •
      GNU General Public License v3.0
      •5•17•6•0•Updated Jun 2, 2022Jun 2, 2022

    • gtfold

      Public
      GTfold is a fast, scalable multicore code for predicting RNA secondary structure and is one to two orders of magnitude faster than the de facto standard programs and achieves comparable accuracy of prediction.
      C++
      •18•0•9•0•Updated Oct 6, 2021Oct 6, 2021

    • ipam-wbio-scripts

      Public
      Repository with scripts for 2019 IPAM Women in Biology workshop project in RNA ensemble analysis
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 22, 2021Jan 22, 2021

    • RNAStructProfiling_with_Consolidation_DEPRECATED

      Public archive
      C
      •0•0•0•0•Updated Nov 6, 2019Nov 6, 2019

    • RNAStructProfiling

      Public
      Profiles RNA structures and produces a summary graph in graphviz format. Additional information available at
      C++
      •
      GNU General Public License v3.0
      •5•7•0•0•Updated Nov 30, 2018Nov 30, 2018

    • GTModify

      Public
      A commandline tool for modifying the thermodynamic parameters used by gtfold (https://github.com/gtfold/gtfold).
      C++
      •0•0•1•0•Updated Jun 22, 2018Jun 22, 2018

    • ConsensusStems

      Public
      Scripts implementing ConsensusStems, a novel method that clusters profiles of Boltzmann sampels to predict consensus stems for unaligned sequences
      Perl
      •0•0•3•0•Updated May 2, 2018May 2, 2018