Article

Pavian: Interactive analysis of metagenomics data for microbiomics and pathogen identification

2016-10-31

Abstract excerpt

<h4>Summary</h4> Pavian is a web application for exploring metagenomics classification results, with a special focus on infectious disease diagnosis. Pinpointing pathogens in metagenomics classification results is often complicated by host and laboratory contaminants as well as many non-pathogenic microbiota. With Pavian, researchers can analyze, display and transform results from the Kraken and Centrifuge classi...

Topics

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

Identifiers and source

Literature Corpus work: 22c24fd3-ed75-53c9-a134-ffa18dbfab96
DOI: 10.1101/084715

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Pavian: Interactive analysis of metagenomics data for microbiomics and pathogen identificationDOI 10.1101/084715Read

zAMP and zAMPExplorer: Reproducible Scalable Amplicon-based Metagenomics Analysis and VisualizationSemantic proximity Read

MARTi: a real-time analysis and visualisation tool for nanopore metagenomicsSemantic proximity Read

PanGIA: A Metagenomics Analytical Framework for Routine Biosurveillance and Clinical Pathogen DetectionSemantic proximity Read

RiboSnake – a user-friendly, robust, reproducible, multipurpose and documentation-extensive pipeline for 16S rRNA gene microbiome analysisSemantic proximity Read

ViWrap: A modular pipeline to identify, bin, classify, and predict viral-host relationships for viruses from metagenomesSemantic proximity Read

Knomics-Biota - a system for exploratory analysis of human gut microbiota dataSemantic proximity Read

PathoFact: A pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic dataSemantic proximity Read

Castanet: a pipeline for rapid analysis of targeted multi-pathogen genomic dataSemantic proximity Read

MegaR: an interactive R package for rapid sample classification and phenotype prediction using metagenome profiles and machine learning.Semantic proximity Read

MetaAnalyst: a user-friendly tool for metagenomic biomarker detection and phenotype classification.Semantic proximity Read

PHYLOViZ: phylogenetic inference and data visualization for sequence based typing methods.Semantic proximity Read

SHAMAN: a user-friendly website for metataxonomic analysis from raw reads to statistical analysisSemantic proximity Read