onlinePCA-experiments

About data preparation

• PBMCs : Data/PBMCs/README
• Pancreas : Data/Pancreas/README
• BrainSpinalCord : Data/BrainSpinalCord/README
• Brain : Data/Brain/README

Requirements

• GNU Time : v1.7
• Open Grid Scheduler/Grid Engine : v2011.11
• R : v3.5.0
• Python : v3.6.4
• Julia : v1.0.1
• Rake (Ruby) : v11.2.2

How to perform all the PCA scripts

cd Analysis
rake install # Package installation
rake preprocess # Preprocessing the data files
rake benchmark # Benchmarking all the PCA implementations

Result of the banchmarking

• Eigenvectors : Data/{PBMCs,Pancreas,BrainSpinalCord,Brain}/[Each PCA]/Eigen_vectors.csv
• Eigenvalues : Data/{PBMCs,Pancreas,BrainSpinalCord,Brain}/[Each PCA]/Eigen_values.csv
• Elapsed time and memory usage : Analysis/log/*