Alternatives and similar repositories for ViennaRNA

Users that are interested in ViennaRNA are comparing it to the libraries listed below

• ThomasCMcLean / LazyAF
  Code for LazyAF pipeline
  ☆21Updated last year
• LinearFold / LinearTurboFold
  An end-to-end linear-time algorithm for structural alignment and conserved structure prediction of RNA homologs
  ☆11Updated last year
• ctokheim / deepDegron
  Deep learning model to predict degron sequences
  ☆19Updated 2 years ago
• ViennaRNA / RNAsketch
  Python wrapper to design RNA molecules using RNAblueprint, RNARedPrint and for energy evaluations ViennaRNA, Hotknots, pKiss and Nupack.
  ☆21Updated 7 years ago
• johli / seqprop
  Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor
  ☆50Updated last year
• GfellerLab / MixMHCpred
  HLA-I ligand predictor
  ☆43Updated 3 weeks ago
• IdoSpringer / ERGO
  ERGO is a deep learing based model for predicting TCR-peptide binding.
  ☆18Updated 3 years ago
• moss-lab / ScanFold
  ScanFold is an RNA sequence scanning pipeline which attempts to identify potentially functional RNA secondary structures. This is done by…
  ☆20Updated 2 years ago
• EddyRivasLab / R-scape
  RNA Structural Covariation Above Phylogenetic Expectation
  ☆17Updated 2 months ago
• issararab / EPSAPG
  EPSAPG: An Extensive Protein Sequence Alignment Profiles Generator Pipeline Combining MMseqs2 and PSI-BLAST
  ☆11Updated last year
• dmnfarrell / epitopepredict
  Python package and command line tool for epitope prediction
  ☆52Updated last year
• FunctionLab / tapioca
  a framework for predicting global protein-protein interaction networks from dynamic mass spec data
  ☆24Updated last year
• graph-part / graph-part
  GraphPart, a data partitioning method for ML on biological sequences
  ☆30Updated last year
• zjupgx / DeepCIP
  A deep learning method for the prediction of internal ribosome entry sites (IRES) of circRNAs
  ☆17Updated 3 months ago
• frankligy / DeepImmuno
  Deep-learning empowered prediction and generation of immunogenic epitopes for T cell immunity
  ☆74Updated 2 years ago
• DasLab / RiboGraphViz
  Visualize global properties of large RNAs using GraphViz force-directed layout.
  ☆23Updated 2 years ago
• TurtleTools / caretta
  A software-suite to perform multiple protein structure alignment and structure feature extraction.
  ☆31Updated 2 years ago
• mhorlacher / rbpnet
  ☆18Updated last year
• drgoulet / Codon-optimization
  Use machine learning to design codon-optimized DNA sequences for increased protein expression.
  ☆15Updated 3 years ago
• eternagame / EternaBench
  Evaluating RNA structure prediction using diverse thermodynamic prediction tasks and high-throughput datasets.
  ☆17Updated 3 years ago
• kaistsystemsbiology / DeepProZyme
  DeepECtransformer
  ☆28Updated 2 years ago
• multimeric / Unipressed
  Comprehensive Python client for the Uniprot REST API
  ☆52Updated 2 weeks ago
• nleroy917 / optipyzer
  Multi-Species Codon Optimization Engine
  ☆27Updated 3 months ago
• hexavier / CUSTOM
  Codon optimizer for tissue-specific expression
  ☆17Updated last year
• pcpLiu / DeepSeqPanII
  A sequence-based pan model for peptide-MHC II binding affinity prediction.
  ☆21Updated 3 years ago
• msternke / protein-consensus-sequence
  A set a basic Python scripts to edit a multiple sequence alignment and generate a protein consensus sequence
  ☆18Updated 3 years ago
• X-lab-3D / PANDORA
  MODELLER-based, anchor restrained, Peptide-MHC Modelling pipeline
  ☆24Updated 3 months ago
• Novartis / AEGIS
  MHC-II presentation predictor
  ☆13Updated 2 years ago
• allydunham / sequence_unet
  Fully convolutional deep learning variant effect predictor architecture
  ☆23Updated last year
• GfellerLab / MixMHC2pred
  HLA-II ligand predictor.
  ☆45Updated 2 years ago