Closed:Barcode sequence for Qiime2 analysis
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5.0 years ago
MAPK ★ 2.1k

Hi All, I have 16S data and I wanted to use Qiime2 to do diversity analysis. The sequencing run summary of my fastq file have barcode sequence listed as below (with + ):

Lane    Sample  Barcode sequence    PF Clusters % of the    % Perfect
                lane    barcode
1   16S_M_T1_R1_S1  GCAGGATG+ACGACAGG   47,045  0.24    90.42
1   16S_M_T1_R1_S2  GCAGGATG+TGTACTTC   8,130   0.04    90.01
1   16S_M_T1_R1_S3  GCAGGATG+GAGTTATT   44,841  0.23    90.68

What should I use as my barcode sequence to be used in metadata? The sample metadata from qiime has all these columns:

#SampleID   BarcodeSequence LinkerPrimerSequence    BodySite    Year
#q2:types   categorical categorical categorical numeric
L1S8    AGCTGACTAGTC    GTGCCAGCMGCCGCGGTAA gut 2008
L1S57   ACACACTATGGC    GTGCCAGCMGCCGCGGTAA gut 2009
L1S76   ACTACGTGTGGT    GTGCCAGCMGCCGCGGTAA gut 2009

Also, is it necessary to have both barcodes and Linker primers to do qiime2 analysis?

microbiome qiime2 • 1.6k views
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