First off, I want to say that the qiime2R plugin has been great. Being able to tie in a Qiime analysis with Phyloseq graphics is really convenient.
I have been having a minor problem with import using the qza_to_phyloseq function. I am finding that my metadata file is losing the entire first column with “SampleID” as the header. I am querying the resulting phyloseq object to check:
I am not sure why this is happening. I attached a portion of the map file below:
Q2_example.txt (190 Bytes)
This is the result of colnames([email protected]_data):
“Sample_Name” “Project_Name” “Subproject” “Type”
I expect “SampleID” to be the first column, however. Would anyone be able to advise on this issue?