Data Processing

"Suggested" instructions for processing your normalized data:
( 2 or more files only )

  1. After saving your data, open the "trimmed mean", "median", or "LOWESS" output file using EXCEL
  2. Sort the list by p-value (in ascending order).
  3. Copy the entries having a p-value <= 0.05 (or <= your chosen alpha) into a new document.
  4. Un-log all ratios per gene. (excel: = (2^X)).
  5. Take the average of the new un-logged ratios per gene (excel: =AVERAGE(A1:A6)).
    6. (NOTA BENE: DO NOT un-log the "MEAN" of the logged ratios.).
  6. Sort the entries by new un-logged average.
  7. Remove entries that have averaged ratios between 0.5 and 2.0 (which represents a 2-fold difference) or your fold difference of choice.