Article

NGSTroubleFinder: A tool for detection and quantification of contamination and kinship across human NGS data

2025-02-05

Abstract excerpt

<h4>Summary</h4> Quality control is a fundamental but often neglected step in any NGS pipeline. Detecting issues like cross-sample contamination and sample swaps is essential to control the data integrity. Here, we present NGSTroubleFinder, a novel python tool to detect cross-sample contamination in human Whole-Genome and Whole-Transcriptome Sequencing data, sample swaps and mismatches between the reported and th...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 89418fec-edad-5260-bcd1-85f9c426cab0
DOI: 10.1101/2025.01.31.635690

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

NGSTroubleFinder: A tool for detection and quantification of contamination and kinship across human NGS dataDOI 10.1101/2025.01.31.635690Read

nf-core/detaxizer: A Benchmarking Study for Decontamination from Human SequencesSemantic proximity Read

NGSCheckMate: software for validating sample identity in next-generation sequencing studies within and across data types.Semantic proximity Read

The Human “Contaminome”: Bacterial, Viral, and Computational Contamination in Whole Genome Sequences from 1,000 FamiliesSemantic proximity Read

ContaTester: Fast cross-contamination estimation and identification for large human sequencing cohortsSemantic proximity Read

Challenges of sequencing human genomes.Semantic proximity Read

Who’s who? Detecting and resolving sample anomalies in human DNA sequencing studies with <i>peddy</i>Semantic proximity Read

Varstation: a complete and efficient tool to support NGS data analysisSemantic proximity Read

Who's Who? Detecting and Resolving Sample Anomalies in Human DNA Sequencing Studies with Peddy.Semantic proximity Read

Detecting sample swaps in diverse NGS data types using linkage disequilibrium.Semantic proximity Read

ContEst: estimating cross-contamination of human samples in next-generation sequencing data.Semantic proximity Read

A fast, reliable and easy method to detect within-species DNA contamination.Semantic proximity Read

Performance evaluation of three DNA sample tracking tools in a whole exome sequencing workflowSemantic proximity Read