Principal component analysis
In general, a Principal Component Analysis (PCA) aims at analyzing a data set and discovering a set of coordinates that capture the most representative features of said data. Often the term PCA classification is loosely used. PCA is not a classification method: classification itself is performed on the features extracted through PCA.
In Dynamo, the PCA is the process of finding a reduced set of "eigenvolumes" that allow to approximatively represent each particle in our data set as a combination of these eigenvolumes. Which this representation, a generic particle can be represented by the contributions of each "eigenvolume" to the particle, i.e., by a set of "eigencomponents", normally in a number no much higher than 20.
Once the particles are represent by small sets of scalars, they can be classified with standard methods like k-means.
Operatively, completing a PCA based classification requires three steps:
- Selecting the input
a data folder, a table, a mask
- Computing a cross-correlation matrix
- this is typically the most consuming part, as it involves to compare all particles in the data folder against all particles.
- Computing the eigenvalues, eigenvolumes and eigencomponents
- Using the eigencomponents to create a classification.
GUIs for PCA classification
There are two GUIs available to cover the pipeline: dynamo_ccmatrix_project_manager
There are some pdf tutorials available inside the Dynamodistribution:
- General introduction to PCA based classification.
- Command line classification.