AffylmGUI Comparisons and Filtering
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@quentin-anstee-1257
Last seen 9.6 years ago
Hi, I am new to microarray analysis with R and so have found the AffylmGUI package a great help. I was wondering whether there is any way to filter the gene lists (as I guess you can with filterfun to weed out those genes where expression is too low on some arrays, etc and so reduce the number of genes that as being simultaneously tested) and then still benefit from the ease of use of the AffylmGUI package? Also, I would like to do a three way comparison (A vs B, A vs C and B vs C). When I select 'Compute Contrasts' it provides n-1 possible contrasts. Is it reasonable to do this by setting up three separate contrast parameterizations (one for each contrast pair above)? Very many thanks for any advice. Best wishes, Quentin [[alternative HTML version deleted]]
Microarray affylmGUI Microarray affylmGUI • 527 views
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