cufCDS

cufCDS calculates codon usage frequency (CUF) of coding sequences (CDSs).
The input of this application is a fasta file of coding sequences. The application removes CDSs that are not divisible by 3 and counts the codons of each CDS after removing the start and stop codons. The result for each CDS is reported in the .gcf file.
The following files are also produced:
.fss, which reports the frequencies of codons used as start and stop signals
.lss, which contains the list of start and stop codons of each gene.
.cuf, which reports the total frequencies and the fraction of synonymous codons.

Project Samples

Project Activity

See All Activity >

License

Public Domain

Follow cufCDS

cufCDS Web Site

Other Useful Business Software

Secure File Transfer for Windows with Cerberus by Redwood

Protect and share files over FTP/S, SFTP, HTTPS and SCP with the #1 rated Windows file transfer server.

Cerberus supports unlimited users and connections on a single IP, with built-in encryption, 2FA, and a browser-based web client — all deployable in under 15 minutes with a 25-day free trial.

Try for Free

Rate This Project

User Reviews

Be the first to post a review of cufCDS!

Additional Project Details

Operating Systems

Windows

Intended Audience

Science/Research

Programming Language

Related Categories

C# Bio-Informatics Software

Registered

2025-01-17

Similar Business Software

Galaxy

Galaxy is an open source, web-based platform for data-intensive biomedical research. If you are new to Galaxy start here or consult our help resources. You can install your own Galaxy by following the tutorial and choosing from thousands of tools from the tool shed. This instance of Galaxy is...

See Software
BioTuring Browser

Explore hundreds of curated single-cell transcriptome datasets, along with your own data, through interactive visualizations and analytics. The software also supports multimodal omics, CITE-seq, TCR-seq, and spatial transcriptomic. Interactively explore the world's largest single-cell expression...

See Software
MEGA

MEGA (Molecular Evolutionary Genetics Analysis) is a powerful and user-friendly software suite designed for analyzing DNA and protein sequence data from species and populations. It facilitates both automatic and manual sequence alignment, phylogenetic tree inference, and evolutionary hypothesis...

See Software
SnapGene

Accurately design and simulate cloning procedures. Test complicated projects, catch errors before they happen, and obtain the right constructs the first time. Cloning is easier when you can see what you are doing. The intuitive interface offers you unparalleled visibility into your work,...

See Software
Geneious

Geneious Prime makes bioinformatics accessible by transforming raw data into visualizations that make sequence analysis intuitive and user-friendly. Simple sequence assembly and easy editing of contigs. Automatic annotation for gene prediction, motifs, translation, and variant calling. Genotype...

See Software
Genome Analysis Toolkit (GATK)

Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. The GATK...

See Software