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4.9 years ago
MAPK
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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?