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Last seen 10.2 years ago
Dear colleagues,
I use xps package for my HuGene ST 1.0 array and need some help in
quality control. I used arrayQualityMetrics package before new version
of R was avaliable which doesn't maintain affy package for ST arrays.
ArrayQualityMetrics creates good report with "outliers" assays, which
are out of borders (for example, cut-offs for NUSE is 1.1), but I've
not seen this in xps.
Is it possible to receive this data (median and IQR for NUSE or RLE)
using xps package?
Thank you!
Kirill Prusov