Taur.vil Week 8

Uploaded Files:

Digital Notebook:

1. Downloaded original data (Merrell_Compiled_Raw_Data_Vibrio.xls) from [[1]]
2. Observed that the data collected had already been log transformed (there were negative numbers)
   • Meant we could begin at the normalization step
3. Created a new sheet in Excell, titled scaled_centered.
4. In scaled_centered, inserted two new rows and calculated average and standard deviation for each replicate using the excell functions AVERAGE and STDEV.
5. Created a new column for each of the samples, relabeling them with a _sc (for scaled centered) after the name. Filled these columns with the scaled centered values calculated by taking the raw data minus the average for the sample (row 2) divided by the standard deviation (row 3).
6. created a new worksheet called statistics and copied the ID column into the new worksheet.
7. Pasted values only for the scaled and centered columns.
8. Deleted the rows for average and standard deviation
9. Inserted columns to the right of the data for the average log fold change (FC) of patient and calculated the value by taking the average of the three technical replicates.

comparing to zero which is the null hypothesis of no change. 1) magnitude of change observing 2) variation and number of replicates