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dada2.R 281 bytes
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library(dada2)
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derep <- derepFastq(snakemake@input[[1]], verbose = TRUE)
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err <- learnErrors(snakemake@input[[1]], multithread = snakemake@threads, verbose = TRUE)
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dada <- dada(derep, err = err, multithread = snakemake@threads, verbose = TRUE)
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saveRDS(dada, snakemake@output[[1]])
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