phyloseq error
Hi There
I am using phyloseq and I get the following error message OTU = otu_table(otumat, taxa_are_rows=TRUE) Error in validObject(.Object) : invalid class “otu_table” object: Non-numeric matrix provided as OTU table. Abundance is expected to be numeric.
Could you please advise what am I doing wrong and how to fix it? Thank you in advance, Paula.
• 1,854 views
•
link
updated
by
Chris Dean •
•
written
by
azevedopaula236 •
•
written
by
azevedopaula236 •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
phyloseq_filter_prevalence, non zero dimension
written by junghwachoi96 •
-
Phyloseq sample data error: non-zero dimensions?
written by Emily •
-
DGEList error in EdgeR - Warning: Error in $: $ operator is invalid for atomic vectors
written by shasabhi1 •
-
Rarefaction curve of microbiome study
written by aea55647 •
-
Cannot instantiate ExpressionSet
written by hansrupp •
-
Issues removing unwanted taxa from phyloseq object
written by bioinfo_or_bust •
-
DESeq confusing results
written by leranwangcs •
-
Importing MetaPhlAn3 profile table into phyloseq to use decontam
written by mario_de_manner •
-
How to fix Error in `$<-.data.frame`(`*tmp*`, "Kingdom", value = character(0)) : replacement has …
written by arsilan324
-
Names are not identical in mapping file and the otu file.
written by arunsaikirans •
This error indicates that you have a column with non-numeric inputs somewhere. This most often happens to me when I have forgotten to discard sample names from the first column in the matrix.