CoDeCZ

CoDeCZ derives copy number state from targeted sequencing data on gene or exon level.
Results are NOT true copy number however, but they are semi-quantitative:
It uses the modified z-score to calculate deviation in normalized coverage per specified region. The higher the Z-score,
the higher the copy number. The final z-score depends on the quality of the data and the makeup of the reference pool.

Project Samples

plots per gene, Her2 amplification in 2 samples

Rainbowplot of z-scores on exon level for 2000 genes spread across the genome

Project Activity

See All Activity >

Follow CoDeCZ

CoDeCZ Web Site

Other Useful Business Software

$300 Free Credits to Build on Google Cloud

New customers can spin up VMs, build with AI, and query data at no cost.

Put your $300 in credit toward real workloads, then keep building with free monthly usage for 20+ products. No commitment and no charge until you upgrade.

Start Free

Rate This Project

User Reviews

Be the first to post a review of CoDeCZ!

Additional Project Details

Operating Systems

BSD, Linux

Programming Language

Unix Shell

Related Categories

Unix Shell Bio-Informatics Software

Registered

2014-01-08

Similar Business 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
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
OmnibusX

In the world of biological data science, navigating vast and complex datasets can be a daunting task. Our software toolkit is designed to empower you by accelerating analysis, promoting accessibility, and providing comprehensive visualization tools to help you make sense of these intricate...

See 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
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
Geneyx

Geneyx Analysis is a comprehensive solution for next-generation sequencing (NGS) data that can scale the process of FASTQ to clinical reports for hospital and commercial labs. This advanced platform integrates machine learning and AI-based features to identify novel biomedical insights, while...

See Software