#45 is really weird

[diego00012138]

I think all the discussions under question # 45 did not address the root of the problem. Firstly, it needs to be clarified that the problem itself should be "Error in purrr:: map()" ℹ In index: 1. Caused by error in svd(): ! ' There are infinite or missing values in x ', It's not about bootstrap, these should be two separate issues. Secondly, this error is quite strange because I only set different seeds (123yes, 111no), which may cause errors when running.

below is my code: otu <- read.csv("otu.csv",row.names = 1) env <- read.csv("env.csv",row.names = 1) tax <- read.csv("tax.csv",row.names = 1) tax <- as.matrix(tax) physeq <- phyloseq( otu_table(otu,taxa_are_rows = TRUE), tax_table(tax), sample_data(env) ) physeq set.seed(111) data <- normalize(physeq, method = "rarefy") adj <- tax_table(data) %>% apply(.,2,function(x) length(unique(x))) %>% sum lefse <- run_lefse( data,
norm = "none", group = "grazing", multigrp_strat = TRUE, wilcoxon_cutoff = 0.05, kw_cutoff = 0.05, bootstrap_n = 50, lda_cutoff = [1] )

below are my data [Uploading env.csv…]()

[diego00012138]

tax.csv

[diego00012138]

env.csv

[diego00012138]

otu.csv