Created
July 3, 2023 09:40
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Compare lefser output with relab and counts
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suppressPackageStartupMessages(library(curatedMetagenomicData)) | |
zeller <- curatedMetagenomicData::curatedMetagenomicData("Zeller.+relative_abundance", counts = FALSE, dryrun = FALSE)[[1]] | |
zellercounts <- curatedMetagenomicData::curatedMetagenomicData("Zeller.+relative_abundance", counts = TRUE, dryrun = FALSE)[[1]] | |
zeller <- zeller[, zeller$study_condition != "adenoma"] | |
zellercounts <- zellercounts[, zellercounts$study_condition != "adenoma"] | |
suppressPackageStartupMessages(library(lefser)) | |
res_group <- lefser(zeller, groupCol = "study_condition") | |
res_group_counts <- lefser(zellercounts, groupCol = "study_condition") | |
head(res_group) | |
head(res_group_counts) |
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