Combining data from scans at different intensities
0
0
Entering edit mode
@gordon-smyth
Last seen 3 hours ago
WEHI, Melbourne, Australia
Dear John, Version 2.9.9 of the limma package (very recent) has a function mergeScansRG() which will merge two GenePix scans. In the next week or two there'll be a function for merging an arbitrary number of scans. Cheers Gordon At 10:00 PM 14/02/2007, bioconductor-request at stat.math.ethz.ch wrote: >Date: Tue, 13 Feb 2007 16:38:22 -0800 >From: John Fowler <fowlerj at="" science.oregonstate.edu=""> >Subject: [BioC] Combining data from scans at different intensities >To: bioconductor at stat.math.ethz.ch >Message-ID: <p06240803c1f80a6ca5dd@[128.193.138.53]> >Content-Type: text/plain > >Hello, > >I would like to use data extracted from images scanned at 3 different >intensities in our GenePix scanner. There are a couple of papers >that I could find (Lyng et al 04, Piepho et al 06) that describe >methods to combine these data and thus help deal with problems of >saturation and signals across the dynamic range of the scanner. > >I looked for a way to do this in bioconductor, and found a post from >Dr. Henrik Bengtsson, indicating that this was possible using the >aroma.light package in bioconductor. However, he indicated that this >should be done with data from scans in which the laser intensity =was >not changed=. > >Unfortunately, my scans used two different laser intensities. > >Does this invalidate using aroma.light for this purpose? Is there >any other Bioconductor package that could deal with my (apparently >incorrectly obtained) data? > >many thanks! >John > >-- >John Fowler Associate Professor >Botany and Plant Pathology (BPP) Dept. >2082 Cordley Hall Phone: (541) 737-5307 >Oregon State University FAX: (541) 737-3573 >Corvallis, OR 97331-2902 USA Email: fowlerj at science.oregonstate.edu
limma aroma.light limma aroma.light • 534 views
ADD COMMENT

Login before adding your answer.

Traffic: 319 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6