Hello people,
first time poster and also kind of first time sequencer.
I just started my PhD which involves a lot of NGS on a MiSeq and my supervisor and I ran 11 samples last week.
The initial metrics looked very nice (cluster density of 1100 and 92% of clusters passing QC) but the data after the run showed a quality dropoff in both directions after about 100 cycles and only 40% of >Q30 reads.
We both don't really know what the issue could be and think that it was probably not an issue with the adaptors or clustering – that looked nice in the beginning – so I decided to take the troubleshooting on!
You find the screenshot attached, any input is valued Thanks in advance!
first time poster and also kind of first time sequencer.
I just started my PhD which involves a lot of NGS on a MiSeq and my supervisor and I ran 11 samples last week.
The initial metrics looked very nice (cluster density of 1100 and 92% of clusters passing QC) but the data after the run showed a quality dropoff in both directions after about 100 cycles and only 40% of >Q30 reads.
We both don't really know what the issue could be and think that it was probably not an issue with the adaptors or clustering – that looked nice in the beginning – so I decided to take the troubleshooting on!
You find the screenshot attached, any input is valued Thanks in advance!
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