J'aime C. Moehlman's Week 12
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Vibrio cholerae Data Analysis
Normalize the log ratios for the set of slides in the experiment
- entered a new worksheet into our excel file
- pasted all of the compiled raw data into the scaled_centered worksheet
- intserted two rows at the top of the worksheet (above data & below titles)
- in cell A2, we typed "Average" and in cell A3, we typed "StdDev"
- You will now compute the Average log ratio for each chip (each column of data). We did this by using the excel equation "=AVERAGE(B4:B5224)"
- After following that example we computed the average for the rest of the columns
- Then we followed the same steps as above to compute the standard deviation of the log ratios by using the equation "=STDEV(B4:B5224)" and then found the standard deviations for all of the other columns.
- we inserted new colums to the right of each patient sample (i.e. A1- A4, B1-B4, C1-C4) and labelled them each A1-C4_scaled_centered
- In cell C4, we entered this equation: "=(B4-$B$2)/$B$3" and then did the same for every cell in the column, after that we did this for each of the following empty columns
Perform Statistical Analysis on the Ratios
- we created a new worksheet called "statistics"
- then we copied all of the gene id's into this new worksheet into column A
- we copied the values from the A1_scaled_centered worksheet
- we created 3 new columns to show the log values.
- we created a new sheet that is designed specifically for genMAPP.
genMAPP worksheets
