hi, i'm new to HTS sequencing and I had a couple questions about some illumina data.
I was given two files (_R1 and _R2), which i assumed were each one half of the paired reads. I imported them into CLC genomics where the paired ends were paired. My boss is not convinced that the 1 and 2 designations are the paired ends of the sequences, because the 2 read is complementary to the first. I hope i could get some help on figuring out the paired end reads and how to analyze the results, because the samples were sonicated before the run and 100base pair reads that are complementary doesn't seem to fit...
I was given two files (_R1 and _R2), which i assumed were each one half of the paired reads. I imported them into CLC genomics where the paired ends were paired. My boss is not convinced that the 1 and 2 designations are the paired ends of the sequences, because the 2 read is complementary to the first. I hope i could get some help on figuring out the paired end reads and how to analyze the results, because the samples were sonicated before the run and 100base pair reads that are complementary doesn't seem to fit...
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