Using Bioconductor To Analyse Beadarray Data: Difference between revisions
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===Generating a Venn Diagram for Differential Expression=== | ===Generating a Venn Diagram for Differential Expression=== | ||
*First define a cutoff criteria for inclusion. | *First define a cutoff criteria for inclusion. | ||
#One option is to use the decideTests function: | |||
<pre>results = decideTests(ebFit, method="global")</pre> | <pre>results = decideTests(ebFit, method="global")</pre> | ||
*The relevant options are for method and adjust.method | *The relevant options are for method and adjust.method | ||
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***default is "BH" for Benjami and Hochberg | ***default is "BH" for Benjami and Hochberg | ||
***other options are "none", "fdr" (same as BH), "holm" and "BY" | ***other options are "none", "fdr" (same as BH), "holm" and "BY" | ||
# | |||
==Annotation of Expression Sets and Fitted Data== | ==Annotation of Expression Sets and Fitted Data== | ||