codon-usage
There are 35 repositories under codon-usage topic.
Edinburgh-Genome-Foundry/codon-usage-tables
:bar_chart: Codon usage tables in code-friendly format + Python bindings
Koeng101/dnadesign
A Go package for designing DNA.
SouradiptoC/CodonU
A python project for analysis of codon usage for gene or genome analysis
IQTLabs/freqgen
🎯 Generate DNA sequences with specified amino acid, codon, and k-mer frequencies
rhondene/Codon-Usage-in-Python
Python3 implementation of commonly used codon usage statistics
Kalan-Lab/codoff
codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, phage, etc.) relative to the full genome.
tdseher/simple-codon-optimizer
Simple Python program to perform codon optimization or heterology calculations.
Maximato/Codonopt
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)
alondmnt/codon-bias
Python package of codon usage bias analysis tools
smsaladi/codonw-slim
A slimmed down fork of CodonW with python bindings
enovoa/codonUsageToolkit
Toolkit to analyze codon usage bias
mt1022/cubar
R Package for Codon Usage Bias Analysis
alondmnt/codon-usage
MATLAB package for codon usage bias and NGS analysis
gxelab/cubat
Currently, we don't have the bandwidth to update and maintain the Python version; please use the R version instead. (https://github.com/mt1022/cubar)
lindechun/CodonM
Comparative analysis pipeline of Population's Codon Usage
smsaladi/codonpair
A codon pair score/codon pair bias calculator
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.
Bohdan-Khomtchouk/Gaussian-distributed-codon-frequencies-of-genomes
Source code to accompany manuscript entitled "Gaussian-distributed codon frequencies of genomes" (Khomtchouk & Nonner, 2019)
juanvillada/CodG
Analysis of codon positional dependency
ostash-group/GeneticPlotter
A tool with nice GUI to visualize the codon usage frequencies in whole genomes
Gumgo91/CodonHumanization
A Novel Approach to Codon Optimization Based on Machine Learning and Genetic Algorithm
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.
BrianDehlinger/DCB-Dynamic-Codon-Biaser
A tool for dynamically calculating the codon usage bias in bacterial genomes and querying of a database for Codon Bias statistical analysis
chaupka/codon_harmonization
A script for codon harmonization.
dyyvgug/CUBE
Calculate CUB indices and optimize the gene sequence to enhance expression
PLeeLab/methane_oxidation_genetic_trait
Methods and data to reproduce the investigation on the adaptive trait found in the genes of the methane oxidation metabolic module of type Ia methanotrophs
webermarcolivier/codon_usage_oncogenes
Analysis of codon usage in oncogene families.
juanvillada/H_bonds_ramp
Research on position-dependent hydrogen bonds per codon
Lennart2001/codon-usage
Predicting Taxonomic Identity and Genetic Composition of Codon Usage Bias Levels Using Deep Learning Models
mariachiaragrieco/TIPre
Taxonomic Identity PREdiction: homework for Machine Learning Course 2021 (MSc Bioinformatics for Computational Genomics)
MPurushothamRao/Codon-Optimiser-by-codon-bias
It is simple codon optimiser by using codon bias and usage
samdarshihawk/Codon-decoder
Codon decoder, taking a input from user, then the program will display the type protein created by the codon
dzhang32/codino
Calculating AA frequencies from codon design, and vice versa
Mordziarz/RSCUcaller
Program in R for calculating RSCU.