A high-performance, zero-overhead, extensible Python compiler with built-in NumPy support

CodonTransformer (2M+ Downloads); The tool for codon optimization, optimizing DNA for protein expression

Repository for mRNA Paper and CodonBERT publication.

Workflow based REST framework code generator

A family of codon-resolution language models trained on 130 million protein-coding sequences from over 20,000 species.

RNN-based Codon Optimization Tool. Publication: https://doi.org/10.1186/s12859-023-05246-8

AI native programming language one correct way to write everything

Codon's bioinformatics module

Analyzing combinations of codon substitution histories

CodonBert: a BERT-based architecture tailored for codon optimization using the cross-attention mechanism.

:bar_chart: Codon usage tables in code-friendly format + Python bindings

https://www.nature.com/articles/s41598-020-74091-z#Tab1

Python Implementation of Codon Adaption Index

VIRULIGN: fast codon-correct alignment and annotation of viral genomes

No description available

Multi-Species Codon Optimization Engine

Codon Optimizer for mRNA Vaccine Design

Calculate dN/dS ratio precisely (Ka/Ks) using a codon-by-codon counting method.

A python project for analysis of codon usage for gene or genome analysis

No description available

Accurate estimation and robust modelling of translation dynamics at codon resolution

Codon Usage Analysis and Prediction of Gene Expressivity

Scripts and procedures for detecting positively selected genes and codons in primates

Python package of codon usage bias analysis tools

Codon-Aware Multiple Sequence Alignments

Pipeline for Quality Control of Ribo-Seq data, selection of P-site offsets, and codon usage statistics.

A neural based approach to the task of genetic codon optimization

This is used to call Codeml to calculate the positive selection of gene in Branch-Sites Model.(Require codon sequence)

A small program that glues together other programs allowing a user to input a codon alignment in FASTA format and produce an annotated phylogenetic tree showing which substitutions occurred on a given branch. Originally written for colleagues at the MRC NIMR.

Codon optimizer for tissue-specific expression