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    15 repositories

    • EndProximity

      Public
      Supporting documentation for end-to-end (5' to 3') distance results
      Jupyter Notebook
      •0•0•0•0•Updated Jan 24, 2026Jan 24, 2026

    • homebrew-core

      Public
      🍻 Taps of requirements for gtDMMB software on Mac OSX
      Ruby
      •
      BSD 2-Clause "Simplified" License
      •13k•0•0•0•Updated Jan 22, 2026Jan 22, 2026

    • ParamPartAlg

      Public
      Python
      •0•0•0•0•Updated Aug 23, 2025Aug 23, 2025

    • RNAStructViz

      Public
      Visualization, comparison, and analysis of RNA secondary structures via a cross-platform GUI
      C
      •
      GNU General Public License v3.0
      •5•17•7•0•Updated May 19, 2025May 19, 2025

    • 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•1•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 a…
      pythonpython-librarypython3python-bindingsrna-seq-analysisrna-structure-prediction
      C
      •
      GNU General Public License v3.0
      •0•1•5•0•Updated Jun 21, 2022Jun 21, 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 program…
      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
      •4•8•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