ART-DeCo download | SourceForge.net

ART-DeCo

ART-DeCo uses polymorphism allelic ratio to predict contaminations

Brought to you by: vber

Downloads: 2 This Week

Last Update: 2018-10-15

Add to Preferred Sources

ART-DeCo (Allelic Ratio based Tool for Detection of Contamination) has been designed to detect contamination in constitutional NGS analysis. The tool uses the allelic ratio (AR) of Single Nucleotide Polymorphisms (SNPs) sequenced within regions of interest. When a sample is contaminated by DNA with a different genotype, unexpected ARs are obtained. Those are in turn used for detection of contamination with a screening test, followed by
identification and quantification of the contaminant.
ART-DeCo can be implemented in any NGS workflow, from gene panel to genome-wide analyses.
Any polymorphism is helpfull. Rare SNPs and SNPs in linkage disequilibrium should be taken into account to consolidate predicted contaminations.

Project Samples

Contamination illustration

ART-DeCo help

ART-DeCo output file for contamination predictions

ART-DeCo output file for all samples and SNPs frequency report

Project Activity

See All Activity >

Follow ART-DeCo

ART-DeCo Web Site

Other Useful Business Software

Endpoint Management with Remote Control Built In Icon

Endpoint Management with Remote Control Built In

Patch, monitor, and connect to Windows and macOS devices from one console

Save 50% on your first year when you switch from your existing RMM to Splashtop AEM. Automate patching, track inventory, and jump directly into 1-click unattended remote sessions without switching tools.

Start Free Trial

Rate This Project

Login To Rate This Project

User Reviews

Be the first to post a review of ART-DeCo!

Additional Project Details

Registered

2018-06-07

Report inappropriate content

Ship Agents Faster

Transform your applications and workflows into powerful agentic systems at global scale.

Gemini Enterprise Agent Platform lets you rapidly build, scale, govern and optimize production-ready agents grounded in your organization's data. The platform enables developers to build custom or pre-built agents for virtually any use case. New customers get $300 in free credits.

Start Free

Recommended Projects

TASSEL
TASSEL is a bioinformatics software package
Virmid
Virtual Microdissection for SNP calling
DeconSeq
The DeconSeq tool can be used to automatically detect and efficiently remove sequence contamination from genomic and metagenomic datasets. It is easily configurable and provides a user-friendly interface. More at http://deconseq.sourceforge.net
inGAP-family
inGAP-family provides an efficient and effective framework to discover, filter and visualize DNA polymorphisms and structural variants from alignment of short reads. Applying this method on polymorphism detection on real datasets shows that elimination of artificial variants greatly facilitates the precise identification of meiotic recombination points, recognizing causal mutations in mutant genomes or QTL loci. In addition, inGAP-family provides user-friendly graphical interface for detection of polymorphisms and structural variants, and for further evaluation of predicted variants and identification of mutations related to genotypes. inGAP-family is implemented in Java to provide a platform-independent tool, and to support both command line mode and graphical mode. The output could also be visualized in user-friendly graphical interface for checking SNPs, indels and large-scale structural variants.
The friendly GWAS SNP enrichment tool
Tests for enrichment of GWAS SNPs in epigenetic datasets