I tried to dereplicate my dataset using
qiime vsearch dereplicate-sequences
however I got an error
(1/1) Invalid value for ‘–i-sequences’: Expected an artifact of at least
type SampleData[Sequences] | SampleData[SequencesWithQuality] |
SampleData[JoinedSequencesWithQuality]. An artifact of type
FeatureData[Sequence] was provided.
I then tried to import the data as Sample Data [Sequences], but i got this error
qiime tools import --input-path Rhizosphere.fasta --output-path Rhizosphere.fasta.qza --type ‘SampleData[Sequences]’
There was a problem importing Rhizosphere.fasta:
Rhizosphere.fasta is not a(n) QIIME1DemuxFormat file.
How to fix this error.
thanks in Advance.
Can you show us the first ~10 lines of “Rhizosphere.fasta”?
Here they are
Thanks @divyaprince321 - this does not appear to be the right format for importing as a
QIIME1DemuxFormat file, you can see the spec for the expected file layout, here:
I'm not aware of any method to work with these data in QIIME 2 right now - you appear to have barcode sequences in the FASTA header line (and they appear to be dual-index barcodes, as well) - we don't have any tools that are capable of demultiplexing sequences with barcodes in the header. If you can find a way to turn this into a
QIIME1DemuxFormat, then you can import it and dereplicate the reads, but until then, I don't have any other ideas for you.
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