Insert size 350bp vs 400bp, any major downstream difference?
Hello!
I have two data sets one from HiSeq4000 with an insert size of 350bp and another set of reads from NovaSeq with average 400bp. I am wondering if I should have any reasons to belive there would be major consequences of this difference down the line.
Both sets of reads have the same length (150bp).
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Without completely knowing what you are doing I would say there shouldn't be a major consequence. There is generally a distribution of inserts anyway so the two insert size distributions should overlap to an extent.
I also though so too, I am doing SNP discovery