Repositories list

• SISSIz

  Public
  SISSIz: Dinucleotide controlled random alignments and RNA gene prediction

  C

  •

  Other

  •33 forks•99 stars•00 issues•00 pull requests•Updated Aug 30, 2026Aug 30, 2026

• xrRNA-design-code

  Public
  Jupyter Notebook

  •11 fork•00 stars•00 issues•00 pull requests•Updated Mar 27, 2026Mar 27, 2026

• ViennaRNA

  Public
  The ViennaRNA Package

  C

  •

  Other

  •9999 forks•434434 stars•4747 issues•66 pull requests•Updated Feb 24, 2026Feb 24, 2026

• ViennaRNA-Tutorial

  Public
  Tutorial for ViennaRNA/RNAlib usage

  Jupyter Notebook

  •11 fork•22 stars•00 issues•11 pull request•Updated Dec 10, 2025Dec 10, 2025

• VEEnext

  Public
  Nextstrain community build 'Molecular epidemiology of Venezuelan equine encephalitis complex viruses'

  bioinformaticsvirusphylogenetics+ 5

  bioinformaticsvirusphylogeneticsphylogeographyepidemiologyvirologyphylodynamicsvenezuelan-equine-encephalitis-virus

  11 fork•11 star•00 issues•00 pull requests•Updated Nov 10, 2025Nov 10, 2025

• CHIKV

  Public
  Nextstrain community build 'Molecular epidemiology of Chikungunya virus'

  bioinformaticsphylogeographyepidemiology+ 3

  bioinformaticsphylogeographyepidemiologyvirologyphylodynamicschikungunya

  11 fork•44 stars•00 issues•00 pull requests•Updated Nov 10, 2025Nov 10, 2025

• crosslinking

  Public
  Jupyter Notebook

  •00 forks•11 star•00 issues•00 pull requests•Updated Oct 22, 2025Oct 22, 2025

• LinuxCommandLineTutorial

  Public
  TeX

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 2, 2025Oct 2, 2025

• sd-workshop-dubice2025

  Public
  Sustainable Software Development - Workshop

  C

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Sep 29, 2025Sep 29, 2025

• drtransformer

  Public
  Heuristic cotranscriptional folding using the nearest neighbor energy model.

  Python

  •

  MIT License

  •55 forks•55 stars•11 issue•00 pull requests•Updated Jun 3, 2025Jun 3, 2025

• VIECPLX

  Public
  C++

  •00 forks•11 star•00 issues•00 pull requests•Updated Mar 6, 2025Mar 6, 2025

• negseeddesign

  Public
  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 28, 2024Oct 28, 2024

• RNAcode

  Public
  RNAcode - Detecting protein coding genes in multiple sequence alignment

  C

  •

  GNU General Public License v3.0

  •77 forks•2727 stars•66 issues•11 pull request•Updated Aug 22, 2024Aug 22, 2024

• RNAblueprint

  Public
  RNAblueprint library for uniform sampling of RNA sequences given structural and sequence constraints

  designrna-structurerna-design+ 5

  designrna-structurerna-designrnablueprint-libraryriboswitchinverse-foldingviennarnanupack

  C++

  •

  GNU General Public License v3.0

  •33 forks•1010 stars•11 issue•00 pull requests•Updated Jul 29, 2024Jul 29, 2024

• fornac

  Public
  A container for the forna visualization software.

  JavaScript

  •

  Apache License 2.0

  •1616 forks•2222 stars•1414 issues•11 pull request•Updated May 30, 2024May 30, 2024

• RRIdesign

  Public
  Jupyter Notebook

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 27, 2024Mar 27, 2024

• forgi

  Public
  An RNA manipulation library.

  Python

  •

  GNU General Public License v3.0

  •3232 forks•5656 stars•1515 issues•00 pull requests•Updated Feb 16, 2024Feb 16, 2024

• ernwin

  Public
  Sample and predict coarse grain 3D RNA structures

  Python

  •

  GNU Affero General Public License v3.0

  •55 forks•1010 stars•33 issues•00 pull requests•Updated Feb 12, 2024Feb 12, 2024

• drforna

  Public
  Interactive visualization of cotranscriptional folding

  visualizationrnasecondary-structure+ 1

  visualizationrnasecondary-structurecotranscriptional-folding

  JavaScript

  •

  Apache License 2.0

  •22 forks•77 stars•44 issues•00 pull requests•Updated Aug 3, 2023Aug 3, 2023

• softconsensus

  Public
  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 23, 2023Jun 23, 2023

• salty

  Public
  Tutorial like notebook to use salt option in RNAlib

  Jupyter Notebook

  •00 forks•11 star•00 issues•00 pull requests•Updated Jun 8, 2023Jun 8, 2023

• PLfoldSampling

  Public
  RNAPLfold revisited

  Jupyter Notebook

  •00 forks•22 stars•00 issues•00 pull requests•Updated Jun 6, 2023Jun 6, 2023

• DrTutorial

  Public
  Data, scripts and other resources for the DrTransformer Tutorial

  Python

  •

  Creative Commons Zero v1.0 Universal

  •00 forks•11 star•00 issues•00 pull requests•Updated May 16, 2023May 16, 2023

• ERNWIN-SPQR-Tutorial

  Public
  ERNWIN-SPQR Tutorial files

  Shell

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 15, 2023May 15, 2023

• YFVnext

  Public
  Nextstrain community build 'Genomic diversity of Yellow Fever virus (YFV)'

  00 forks•00 stars•00 issues•00 pull requests•Updated Mar 30, 2023Mar 30, 2023

• TBEVnext

  Public
  nextstrain.org build: Molecular epidemiology of Tick-borne encephalitis virus (TBEV)

  00 forks•00 stars•00 issues•00 pull requests•Updated Dec 9, 2022Dec 9, 2022

• BarMap

  Public
  A pipeline for simulation of RNA folding on dynamic landscapes

  Perl

  •33 forks•00 stars•00 issues•22 pull requests•Updated Dec 9, 2022Dec 9, 2022

• rnadeep

  Public
  Code and data for the RNAML paper

  Python

  •11 fork•88 stars•00 issues•00 pull requests•Updated Aug 4, 2022Aug 4, 2022

• pourRNA

  Public
  C++

  •

  GNU General Public License v2.0

  •00 forks•44 stars•11 issue•00 pull requests•Updated Jul 10, 2022Jul 10, 2022

• Barriers

  Public
  Compute local minima and energy barriers of a landscape

  C

  •

  GNU General Public License v2.0

  •11 fork•44 stars•00 issues•00 pull requests•Updated Feb 25, 2022Feb 25, 2022