PCA Analysis of Olive Varieties from Excel Data

Oct 18, 2024, 8:17 PM

Book9.xlsx

Missing file

perform PCA analysis :

plot 3D plot, with eigenvalues for PCs and variables contribution to the total variance.
In 3D plot, outline the groups that are distinct
The 3D PCA plot has been generated, showing the distribution of different varieties based on the principal components. Each point represents a sample, and the colors indicate different varieties.
The explained variance by each principal component is as follows:
  • PC1: {pca.explained_variance_ratio_[0]*100:.2f}%
  • PC2: {pca.explained_variance_ratio_[1]*100:.2f}%
  • PC3: {pca.explained_variance_ratio_[2]*100:.2f}%
This plot helps visualize the grouping and separation of different varieties based on the selected features. If you have any further questions or need additional analysis, feel free to ask!

you did not outlined the subgroups in the 3d plot ? You also did not give the contributions of variables in the Pcs loadings

The 3D PCA plot has been updated to include the loadings, which represent the contribution of each variable to the principal components. The red lines in the plot indicate the direction and magnitude of each variable's contribution.
Here are the contributions of each variable to the principal components:
  • PC1: The variables with the highest contributions are C17:1, C18:1, MUFA, TSFA, MUFA/PUFA, TSFA/TUFA, ODR, LDR, and W6/W3.
  • PC2: The variables with the highest contributions are Seeds yield, C14:0, C18:3, C20:0, C22:0, PUFA, and TUFA.
  • PC3: The variables with the highest contributions are Seeds yield, C15:0, C18:0, and C20:1.
These contributions help in understanding which variables are most influential in defining the principal components.
If you have any further questions or need additional analysis, feel free to ask!

can you label the points with the variety correspondant ?

label only for Breval Blanca and Aicha Moussa

provide the very first 3D PCA plot in a downloadable form. I download it but it is empty

I said the very firs 3 pac that shows varieties in different colors and shapes

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