...
Finally, the center effect needs to go. Variables to adjust for: batch, center, plate row, plate column. Percent Variance explained after the adjustment:
Under 14%! Still large effect, look at the variables:
PCs | Batch | Center | Day | Month | Year | Amount | Concentr. | Row | Column | Stage | Grade | Age |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | 0.9986 | 0.9998 | 0.993 | 0.987 | 0.963 | 0.897 | 0.042 | 0.999 | 0.433 | 0.39 | 0.34 | 0.8608 |
2 | 1 | 1 | 1.00 | 1.00 | 0.95 | 0.96 | 0.86 | 0.97 | 0.61 | 0.27 | 0.36 | 0.02406 |
3 | 1 | 1 | 1.00 | 1.00 | 0.84 | 0.96 | 0.50 | 1.00 | 0.75 | 0.33 | 0.45 | 0.3325 |
Now lets take a look at the outliers of the first eigengene: 