I am having some issues during the demultiplex stage:
qiime demux emp-single
Q1- Is there any method to demultiplex without associate to barcode (In Qiime 1.9.0 I used the multiple_split_libraries_fastq.py –i folderpairedsequence –o outputfolder –demultiplexing-method sampleid-by-file? Is there any similar command like this one in QIIME 2?
I have a folder with the paired files and another with the Mapping File (Metadata).
How can I do the demultiplex without the metadata and barcode files, like this command in QIIME 1.9.2 multiple_split_libraries_fastq.py?
I would greatly appreciate for any clarification.
Yes! Check out the import guide for the fastq manifest format, as it works a lot like the
multiple_split_libraries_fastq.py script and gives you even more control over sample names.
Let us know if you have any questions!
In this case what would be the similar command in QIIME 2 for the case below?
multiple_split_libraries_fastq.py –i folderpairedsequence –o outputfolder –demultiplexing-method sampleid-by-file
Yes! The command would be something like
qiime tools import \
--type 'SampleData[PairedEndSequencesWithQuality]' \
--input-path pe-33-manifest.tsv \
--output-path paired-end-demux.qza \
Note that instead of passing a folder, like
folderpairedsequence, you list the files in that folder inside of the
(All the details are in the folder I linked to above )
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