codon-usage
There are 1 repository under codon-usage topic.
Edinburgh-Genome-Foundry / codon-usage-tables
:bar_chart: Codon usage tables in code-friendly format + Python bindings
Language:Python 34- Language:Go 19
- Language:Python 16
- CodonU
SouradiptoC / CodonU
A python project for analysis of codon usage for gene or genome analysis
Language:Python 16 rhondene / Codon-Usage-in-Python
Python3 implementation of commonly used codon usage statistics
Language:Python 10tdseher / simple-codon-optimizer
Simple Python program to perform codon optimization or heterology calculations.
Language:Python 8Maximato / 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)
Language:Python 7- Language:R 6
smsaladi / codonw-slim
A slimmed down fork of CodonW with python bindings
Language:C 6- Language:R 5
alondmnt / codon-bias
Python package of codon usage bias analysis tools
Language:Python 4MATLAB package for codon usage bias and NGS analysis
Language:MATLAB 4gxelab / 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)
Language:Python 4- Language:Python 4
- Language:Perl 4
Bohdan-Khomtchouk / Gaussian-distributed-codon-frequencies-of-genomes
Source code to accompany manuscript entitled "Gaussian-distributed codon frequencies of genomes" (Khomtchouk & Nonner, 2019)
Language:D 3- Language:R 3
ostash-group / GeneticPlotter
A tool with nice GUI to visualize the codon usage frequencies in whole genomes
Language:Python 3Gumgo91 / CodonHumanization
A Novel Approach to Codon Optimization Based on Machine Learning and Genetic Algorithm
Language:Jupyter Notebook 2anchitaaghag / 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 1BrianDehlinger / 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
Language:Python 1- Language:Python 1
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
Language:R 1stracquadaniolab / 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 1webermarcolivier / codon_usage_oncogenes
Analysis of codon usage in oncogene families.
Language:Jupyter Notebook 1juanvillada / H_bonds_ramp
Research on position-dependent hydrogen bonds per codon
Language:R 0Lennart2001 / codon-usage
Predicting Taxonomic Identity and Genetic Composition of Codon Usage Bias Levels Using Deep Learning Models
Language:TeX 0mariachiaragrieco / TIPre
Taxonomic Identity PREdiction: homework for Machine Learning Course 2021 (MSc Bioinformatics for Computational Genomics)
Language:Jupyter Notebook 0MPurushothamRao / Codon-Optimiser-by-codon-bias
It is simple codon optimiser by using codon bias and usage
Language:Python 0samdarshihawk / Codon-decoder
Codon decoder, taking a input from user, then the program will display the type protein created by the codon
Language:Java 0- Language:Python
- Language:JavaScript
