Hi there!
I am trying to import a FASTA file with contigs of paired sequences and to do taxonomy assignment on them.
Been trying to use VSEARCH command, but no success. When typed this command:
qiime tools import
--input-path sequencesMG.fasta
--output-path seqsMG.qza
--type 'SampleData[Sequences]'
Got an error:
There was a problem importing sequencesMG.fasta:
sequencesMG.fasta is not a(n) QIIME1DemuxFormat file
Is there another way how to import FASTA sequences and get the associated table.qza with it?
Another way I tried was in this command:
qiime tools import
--input-path otus_rep.fasta
--output-path sequencesMG.qza
--type 'FeatureData[Sequence]'
And then tried to do the taxonomy assignment with:
qiime feature-classifier classify-sklearn
--i-classifier gg-13-8-99-515-806-nb-classifier.qza
--i-reads sequencesMG.qza
--o-classification taxonomyMG.qza
which worked, BUT, i cannot proceed to the next step, to actually visualize my assignments:
qiime taxa barplot
--i-table table.qza
--i-taxonomy taxonomyMG.qza
--m-metadata-file metadata.tsv
--o-visualization taxa-bar-plotsMG.qzv
Since I do not have table.qza
Anybody faced the same trouble?