Hi, All:
New to the forum here. I was running Miseq PE with 1 indexing (read1 14 cycles, index 6, read2 50 cycles), and the run finished without issue. However, during Miseq reporter analysis, only the 50 cycle reads were demultiplexed and fastq generated, while no 14 cycle reads fastq was generated.
This is what the sample sheet looks like:
Workflow,GenerateFASTQ
Application,FASTQ Only
Assay,TruSeq LT
Description,
Chemistry,Default
[Reads]
14
50
[Settings]
[Data]
Sample_ID,Sample_Name,Sample_Plate,Sample_Well,I7_Index_ID,index,Sample_Project,Description
sample1,1,sample plate,A01,A006,GCCAAT
sample2,2,sample plate,A02,A012,CTTGTA
Has anyone experienced similar issue? Do I need to use CASAVA to do my own demultiplexing? Thanks a lot!
New to the forum here. I was running Miseq PE with 1 indexing (read1 14 cycles, index 6, read2 50 cycles), and the run finished without issue. However, during Miseq reporter analysis, only the 50 cycle reads were demultiplexed and fastq generated, while no 14 cycle reads fastq was generated.
This is what the sample sheet looks like:
Workflow,GenerateFASTQ
Application,FASTQ Only
Assay,TruSeq LT
Description,
Chemistry,Default
[Reads]
14
50
[Settings]
[Data]
Sample_ID,Sample_Name,Sample_Plate,Sample_Well,I7_Index_ID,index,Sample_Project,Description
sample1,1,sample plate,A01,A006,GCCAAT
sample2,2,sample plate,A02,A012,CTTGTA
Has anyone experienced similar issue? Do I need to use CASAVA to do my own demultiplexing? Thanks a lot!
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