GitHub topics: codon-optimization
Adibvafa/CodonTransformer
CodonTransformer: The ultimate tool for codon optimization, optimizing DNA sequences for heterologous protein expression across 164 species.
Language: Python - Size: 20.5 MB - Last synced at: 15 days ago - Pushed at: 18 days ago - Stars: 135 - Forks: 16
Edinburgh-Genome-Foundry/DnaChisel
:pencil2: A versatile DNA sequence optimizer
Language: Python - Size: 9.29 MB - Last synced at: 14 days ago - Pushed at: 23 days ago - Stars: 232 - Forks: 47
Edinburgh-Genome-Foundry/codon-usage-tables
:bar_chart: Codon usage tables in code-friendly format + Python bindings
Language: Python - Size: 66.4 KB - Last synced at: 23 days ago - Pushed at: 25 days ago - Stars: 36 - Forks: 11
HallemLab/Wild_Worm_Codon_Adapter
Shiny Web app for automatic codon optimization based on codon usage in Strongyloides species, Pristionchus species, Brugia malayi, as well as user-provided custom codon lookup tables
Language: R - Size: 191 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 2 - Forks: 0
Lattice-Automation/icor-codon-optimization
RNN-based Codon Optimization Tool. Publication: https://doi.org/10.1186/s12859-023-05246-8
Language: Python - Size: 29.5 MB - Last synced at: 6 days ago - Pushed at: about 2 years ago - Stars: 65 - Forks: 13
EpicenterPrograms/codonoptimizer
A program which allows codon optimization for multiple species at the same time
Language: Python - Size: 8.91 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0
Koeng101/dnadesign
A Go package for designing DNA.
Language: Go - Size: 36.8 MB - Last synced at: 14 days ago - Pushed at: 4 months ago - Stars: 30 - Forks: 1
stracquadaniolab/cubseq-nf
CUBseq analyses codon usage bias from RNA-seq data, producing robust CUB estimates that account for variants transcriptome-wide and in highly expressed genes.
Language: R - Size: 187 MB - Last synced at: about 1 month ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 1
retospect/phagetrix
Phage library sequence generator with degenerate basepairs.
Language: Python - Size: 70.3 KB - Last synced at: 15 days ago - Pushed at: about 2 years ago - Stars: 2 - Forks: 0
chaupka/codon_harmonization
A script for codon harmonization.
Language: Python - Size: 19.5 KB - Last synced at: about 1 year ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0
abondrn/polymerust
RNA folding and codon optimization in pure Rust
Language: Rust - Size: 116 KB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
Gumgo91/CodonHumanization
A Novel Approach to Codon Optimization Based on Machine Learning and Genetic Algorithm
Language: Jupyter Notebook - Size: 32.6 MB - Last synced at: 8 months ago - Pushed at: about 2 years ago - Stars: 2 - Forks: 1
MPurushothamRao/Codon-Optimiser-by-codon-bias
It is simple codon optimiser by using codon bias and usage
Language: Python - Size: 107 KB - Last synced at: about 2 years ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0
tdseher/simple-codon-optimizer
Simple Python program to perform codon optimization or heterology calculations.
Language: Python - Size: 31.3 KB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 7 - Forks: 2
anchitaaghag/Codon-Optimization-for-Biopharming
A tool to translate a given protein sequence into a DNA sequence based on a constructed codon use table for a target heterologous host, Nicotiana benthamiana.
Language: R - Size: 2.08 MB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0
