Hello all,
Just wondering if anyone else that uses a MiSeq has observed this issue? We invariably see that the error rate and quality scores are worse on the bottom flow cell surface than the top.
In our current run, the difference is stark and will probably lead to the run failing to meet Illumina's quality standards.
Here is an example of some of the plots:
Cluster density was 1430K/mm2 but with only 75% passing filter.
Kit is a 2x300 v3. Samples are NexteraXT from gDNA.
To me it looks like a problem with focussing on the bottom surface - leading to a failure to accurately pick out clusters and also subsequently call the sequences.
Just wondering if anyone else that uses a MiSeq has observed this issue? We invariably see that the error rate and quality scores are worse on the bottom flow cell surface than the top.
In our current run, the difference is stark and will probably lead to the run failing to meet Illumina's quality standards.
Here is an example of some of the plots:
Cluster density was 1430K/mm2 but with only 75% passing filter.
Kit is a 2x300 v3. Samples are NexteraXT from gDNA.
To me it looks like a problem with focussing on the bottom surface - leading to a failure to accurately pick out clusters and also subsequently call the sequences.
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