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Title[redir]:
DADA2: High resolution sample inference from Illumina amplicon data - PMC
Description:
We present DADA2, a software package that models and corrects Illumina-sequenced amplicon errors. DADA2 infers sample sequences exactly, without coarse-graining into OTUs, and resolves differences of as little as one nucleotide. In several mock ...
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Keywords {🔍}
sequences, dada, sequence, reads, doi, output, methods, amplicon, reference, strains, error, pmc, variants, uparse, sample, google, scholar, pubmed, algorithm, article, forward, errors, identified, variation, mothur, dataset, med, extreme, supplementary, qiime, free, community, model, data, rrna, unique, merged, partition, samples, sequencing, balanced, otus, gene, table, classified, illumina, communities, quality, denoising, inferred,
Topics {✒️}
single-site minor-allele-frequency threshold uk/ena/data/view/prjeb6244 amplicon-specific error-correction methods3 resolving fine-scale variation5 global ends-free alignment merging paired-end reads published fine-scale resolution pmc beta search [google scholar] methods distinguish fine-scale diversity kmer-distance screen prior published false-positive results9 user-settable threshold omega_a kmer-distance cutoff λji needleman-wunsch global alignment fusion gene primers 16s rrna gene ends-free gapping probe strain-level variation illumina-sequenced amplicon data paired-end reads illumina-sequenced amplicon reads 16s rrna pyrosequences fine-scale variation nat methods abstract 18s rrna gene reference-based chimera removal low base-diversity library paired reads jointly single lactobacillus otu20 license information pmcid clinically relevant information crispatus sequence variants full amplicon workflow full output sequence illumina quality scores illumina amplicon errors call singleton variants illumina amplicon data11 publisher site pdf include chimera identification detect rare variants illumina amplicon datasets needleman-wunsch algorithm demultiplexed fastq files markdown files implementing dividing amplicon reads similar sequences reduces minimum abundance threshold united states government
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