Article

To rarefy or not to rarefy: Enhancing diversity analysis of microbial communities through next-generation sequencing and rarefying repeatedly

2020-09-10

Abstract excerpt

Amplicon sequencing has revolutionized our ability to study DNA collected from environmental samples by providing a rapid and sensitive technique for microbial community analysis that eliminates the challenges associated with lab cultivation and taxonomic identification through microscopy. In water resources management, it can be especially useful to evaluate ecosystem shifts in response to natural and anthropogen...

Topics

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

Identifiers and source

Literature Corpus work: 5c1a1934-461a-5df3-bb95-f5ecde15a620
DOI: 10.1101/2020.09.09.290049

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

To rarefy or not to rarefy: Enhancing diversity analysis of microbial communities through next-generation sequencing and rarefying repeatedlyDOI 10.1101/2020.09.09.290049Read

Recentrifuge: robust comparative analysis and contamination removal for metagenomicsSemantic proximity Read

Improving the genetic representation of rare taxa within complex microbial communities using DNA normalization methods.Semantic proximity Read

Virus Quasispecies Rarefaction: Subsampling with or without Replacement?Semantic proximity Read

A field guide for the compositional analysis of any-omics dataSemantic proximity Read

Untangling Microbiota Diversity and Assembly Patterns in the World’s Largest Water Diversion CanalSemantic proximity Read

Effects of microbiome rare taxa filtering on statistical analysisSemantic proximity Read

Geometric averaging provides normalization-invariant feature ranking in compositional sequencing dataSemantic proximity Read

Statistical normalization methods in microbiome data with application to microbiome cancer researchSemantic proximity Read

A broken promise: microbiome differential abundance methods do not control the false discovery rateSemantic proximity Read

Ranking the biases: The choice of OTUs vs. ASVs in 16S rRNA amplicon data analysis has stronger effects on diversity measures than rarefaction and OTU identity threshold.Semantic proximity Read

Frequency of disturbance alters diversity, function, and underlying assembly mechanisms of complex bacterial communitiesSemantic proximity Read

Differential abundance analysis for microbial marker-gene surveys.Semantic proximity Read