I have data from just one sample for 16S sequencing and I have trained my classifier and achieved my taxonomy.qza file. Now I was trying to use the command qiime taxa barplot. But, the command gives an error saying Missing option "–m-metadata-file. The thing is, as I don’t have more than one sample, I didn’t perform the command “–m-sample-metadata-file metadata_16S.tsv” in:
qiime feature-table summarize --i-table PE-table.qza --o-visualization PE-table.qzv --m-sample-metadata-file metadata_16S.tsv. I read in an old post that someone used something as a biom file to convert the feature table into .csv file to use it in the barplotting. But I don’t know how to write the commands for that or if that would be the answer. I would try to perform a metadata file with just one barcode and 1 line for that sample, but in my Paired End sequences I don’t have any barcode as it is just one sample. Hope I made it clear. Thanks!!
The most proper option is to make a metadata file, there is a metadata tutorial in the docs. You just need the #SampleID index column and one fake column, that can be empty except for the header name.
If you have the denoising stats qza file created as output of dada2 (or deblur) you can use that as metadata.
You can use the table itself as metadata.
Thanks Devin! In the case I want to use the table itself, which is the command to convert it to .cvs? or shoud I put the table.qza directly?
The qza should work directly!
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