Dear Developers

This is my first time writing to your mailing list and I apologise if this should be handled in another way .

I would like to report what I believe is a mistake in the documentation of the read.maimages package, part of the limma library.

On the second paragraph of the "Details" on the help  section the Agilent Background estimates description is confusing and part of is has to be incorrect:

"...Background esimates are always medians. For Agilent, "agilent" or "agilent.median" use median foreground while "agilent.mean" uses mean foreground. (Note change of behavior from limma 3.11.17 onwards; "agilent" now has same meaning as "agilent.mean" whereas previously it had same meaning as "agilent.mean".)

Particularly the last sentence. It should either be :

agilent" now has same meaning as "agilent.median" whereas previously it had same meaning as "agilent.mean".)
agilent" now has same meaning as "agilent.mean" whereas previously it had same meaning as "agilent.median".)

I hope this helps,

Best regards,

Duarte Molha


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