eDNAFlow, an automated, reproducible and scalable workflow for analysis of environmental DNA sequences exploiting Nextflow and Singularity
Published 2021 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
eDNAFlow, an automated, reproducible and scalable workflow for analysis of environmental DNA sequences exploiting Nextflow and Singularity
Authors
Keywords
-
Journal
Molecular Ecology Resources
Volume -, Issue -, Pages -
Publisher
Wiley
Online
2021-02-15
DOI
10.1111/1755-0998.13356
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Elevated Symbiodiniaceae richness at Atauro Island (Timor-Leste): a highly biodiverse reef system
- (2019) Joshua I. Brian et al. CORAL REEFS
- SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data
- (2019) Yoann Dufresne et al. BMC BIOINFORMATICS
- DNA metabarcoding—Need for robust experimental designs to draw sound ecological conclusions
- (2019) Lucie Zinger et al. MOLECULAR ECOLOGY
- Anacapa Toolkit : an environmental DNA toolkit for processing multilocus metabarcode datasets
- (2019) Emily E. Curd et al. Methods in Ecology and Evolution
- Workflow systems turn raw data into scientific knowledge
- (2019) Jeffrey M. Perkel NATURE
- Development of a multi-assay approach for monitoring coral diversity using eDNA metabarcoding
- (2019) Jason B. Alexander et al. CORAL REEFS
- FACEPAI: a script for fast and consistent environmental DNA processing and identification
- (2019) Emma Wahlberg BMC ECOLOGY
- Scaling up: A guide to high-throughput genomic approaches for biodiversity analysis
- (2018) Teresita M. Porter et al. MOLECULAR ECOLOGY
- Environmental DNA metabarcoding: Transforming how we survey animal and plant communities
- (2017) Kristy Deiner et al. MOLECULAR ECOLOGY
- Nextflow enables reproducible computational workflows
- (2017) Paolo Di Tommaso et al. NATURE BIOTECHNOLOGY
- Annual time-series analysis of aqueous eDNA reveals ecologically relevant dynamics of lake ecosystem biodiversity
- (2017) Iliana Bista et al. Nature Communications
- Algorithm for post-clustering curation of DNA amplicon data yields reliable biodiversity estimates
- (2017) Tobias Guldberg Frøslev et al. Nature Communications
- Ecosystem biomonitoring with eDNA: metabarcoding across the tree of life in a tropical marine environment
- (2017) Michael Stat et al. Scientific Reports
- Singularity: Scientific containers for mobility of compute
- (2017) Gregory M. Kurtzer et al. PLoS One
- Metabarcoding reveals strong spatial structure and temporal turnover of zooplankton communities among marine and freshwater ports
- (2016) Frédéric J. J. Chain et al. DIVERSITY AND DISTRIBUTIONS
- Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding
- (2016) Alice Valentini et al. MOLECULAR ECOLOGY
- DADA2: High-resolution sample inference from Illumina amplicon data
- (2016) Benjamin J Callahan et al. NATURE METHODS
- MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data
- (2016) Daniel H. Huson et al. PLoS Computational Biology
- VSEARCH: a versatile open source tool for metagenomics
- (2016) Torbjørn Rognes et al. PeerJ
- obitools: aunix-inspired software package for DNA metabarcoding
- (2015) Frédéric Boyer et al. Molecular Ecology Resources
- Increased efficiency in identifying mixed pollen samples by meta-barcoding with a dual-indexing approach
- (2015) Wiebke Sickel et al. BMC ECOLOGY
- REVIEW: The detection of aquatic animal species using environmental DNA - a review of eDNA as a survey tool in ecology
- (2014) Helen C. Rees et al. JOURNAL OF APPLIED ECOLOGY
- Improved detection of an alien invasive species through environmental DNA barcoding: the example of the American bullfrogLithobates catesbeianus
- (2012) Tony Dejean et al. JOURNAL OF APPLIED ECOLOGY
- Towards next-generation biodiversity assessment using DNA metabarcoding
- (2012) PIERRE TABERLET et al. MOLECULAR ECOLOGY
- Species detection using environmental DNA from water samples
- (2008) G. F. Ficetola et al. Biology Letters
Add your recorded webinar
Do you already have a recorded webinar? Grow your audience and get more views by easily listing your recording on Peeref.
Upload NowBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started