Calculating AA frequencies from codon design, and vice versa
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Updated
Oct 18, 2021 - Python
Calculating AA frequencies from codon design, and vice versa
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
Codon decoder, taking a input from user, then the program will display the type protein created by the codon
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.
Calculate CUB indices and optimize the gene sequence to enhance expression
Analysis of codon usage in oncogene families.
Taxonomic Identity PREdiction: homework for Machine Learning Course 2021 (MSc Bioinformatics for Computational Genomics)
A tool for dynamically calculating the codon usage bias in bacterial genomes and querying of a database for Codon Bias statistical analysis
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.
A Go package for designing DNA.
Source code to accompany manuscript entitled "Gaussian-distributed codon frequencies of genomes" (Khomtchouk & Nonner, 2019)
It is simple codon optimiser by using codon bias and usage
CUBseq analyses codon usage bias from RNA-seq data, producing robust CUB estimates that account for variants transcriptome-wide and in highly expressed genes.
MATLAB package for codon usage bias and NGS analysis
Comparative analysis pipeline of Population's Codon Usage
Predicting Taxonomic Identity and Genetic Composition of Codon Usage Bias Levels Using Deep Learning Models
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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