Calculations of the Effect Size (ES) for each microarray study

#Calculations-of-the-Effect-Size-(ES)-for-each-microarray-study

Using Hedges' g value, an adjusted Cohen's d value

#Using-Hedges'-g-value,-an-adjusted-Cohen's-d-value

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Let Group 1 be 3h Sleeping Cerebral Cortex Expression values and Group 2 be 3h SD Cerebral Cortex Expression values

(S mean - SD mean) (Logged values, so minus gives ratio)

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Setup working environment and import data

#Setup-working-environment-and-import-data
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Look at column names and then setup filters for grouping columns into S and SD groups

#Look-at-column-names-and-then-setup-filters-for-grouping-columns-into-S-and-SD-groups
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Calculations

#Calculations
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Import key file from BioMart and index probesets to MGI gene symbols

#Import-key-file-from-BioMart-and-index-probesets-to-MGI-gene-symbols
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Columns from the list above can then easily be picked to produce files for use later. Examples below given:

#Columns-from-the-list-above-can-then-easily-be-picked-to-produce-files-for-use-later.-Examples-below-given:

df3 = average S and SD expression for the platform and the log-fold changes

#df3-=-average-S-and-SD-expression-for-the-platform-and-the-log-fold-changes

df4 = Hedges g values and associated variance for Meta-analysis (after indexing)

#df4-=-Hedges-g-values-and-associated-variance-for-Meta-analysis-(after-indexing)
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