Hello, I got paired end sequences with different sample number and lane number (showing one sample fastq files below) .
1) D3M0_S1_L001_R1_001.fastq.gz 2) D3M0_S45_L002_R1_001.fastq.gz
3) D3M0_S1_L001_R2_001.fastq.gz 4) D3M0_S45_L002_R2_001.fastq.gz
Should i Merge S1 and S45 using cat ? or should i perform seperately each S1 and S45 and get individual read count data ?
what is the better approach for downstream analysis of RNAseq analysis?
if i need to merge , what is the better approach ?
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majeedmj.ict •
perhaps the sample sheet provided to the converter listed these as separate samples.
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Are they the same sample? If they are both actually the same sample then I would merge, otherwise treat them as replicates.