✏️ A versatile DNA sequence optimizer
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May 10, 2025 - Python
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codon-optimization
Here are 13 public repositories matching this topic...
CodonTransformer (1M+ Downloads); The tool for codon optimization, optimizing DNA for protein expression
machine-learning bioinformatics deep-learning synthetic-biology computational-biology gene-expression biotechnology codon-optimization codon codon-optimizer
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Jul 27, 2025 - Python
RNN-based Codon Optimization Tool. Publication: https://doi.org/10.1186/s12859-023-05246-8
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Apr 10, 2023 - Python
📊 Codon usage tables in code-friendly format + Python bindings
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May 9, 2025 - Python
AI-assisted development MCP providing long-term, on-device "AI memory" for IDEs. Powered by Kuzu GraphDB and exposed via MCP server
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Aug 2, 2025 - Python
Simple Python program to perform codon optimization or heterology calculations.
protein-sequences dna-sequences codons codon-optimization codon-usage codon-bias codon-frequencies codon-optimizer
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Apr 13, 2021 - Python
Codonopt program is designed for codon optimization of protein sequences. The core of it based on the mathematical codon optimization proposed by Şen et al. (2020)
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Apr 8, 2021 - Python
Phage library sequence generator with degenerate basepairs.
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Mar 14, 2023 - Python
Codon language model disentangled from protein level semantics.
synthetic-biology cds pytorch dna language-model codon-optimization codon pytorch-lightning mrna-stability protein-language-model mrna-editing mrna-degradation mrna-translation-efficiency mrna-design codon-language-models mrna-sequences
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Sep 2, 2025 - Python
Recode a DNA sequence to match a target amino‑acid sequence with the minimal number of nucleotide changes, preserving the reading frame. Includes a CLI and Python API.
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Sep 15, 2025 - Python
It is simple codon optimiser by using codon bias and usage
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Mar 26, 2023 - Python
A program which allows codon optimization for multiple species at the same time
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Feb 10, 2025 - Python
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