ZhongPei

In the "Introduction to decontam" the import data is [eadRDS(system.file("extdata", "MUClite.rds", package="decontam"))], RDS data, so i am a little confuse about how to import no-RDS data or PS data

**After your reminder, I redid the data import** [metadata.csv](https://github.com/benjjneb/decontam/files/13898392/metadata.csv) [pivot_datawen.csv](https://github.com/benjjneb/decontam/files/13898393/pivot_datawen.csv) setwd("") library(phyloseq) library(decontam) otu_matrix

 **Finally I find the bug, and we should change it to "Control"**  **I this test, Is "not.contaminant:FALSE" means this contig is a contamination? Thanks again for taking the...

To summarize, my problem is that some of the macrogenomic data is difficult to binning into "metaOTU", such as viral data (the kind of ASV relative abundance table that can't...

> You can use decontam with any feature type that has a relative abundance in each sample. This includes contigs. Does this mean that I can use software such as...

In my perception, a standardized contig abundance scale is not the same as a relative abundance scale like 16s. In my perception, a 16s abundance table is where each sample...

> TPM is also a relative abundance. You can use it just the same. > > A "relative abundance" measure, is any metric that informs about the abundance of this...