I want to determine the diversity of chemical compounds that I have collected by using principal component analysis (PCA). Which PCA software is suitable for me to use?
I would suggest for R software, it works great. However, there are also many GUI based software such as Solo, Simca-P etc. Matlab is also a good option.
You should test Unscrambler X (download a free 30 day trial). Other options of GUI based softwares are SPSS or Origin. R is free but you have to write your scripts.
BioVinci can be an option. The PCA there is quite simple to use and easy to understand. Just need to drag and drop columns to their right places. You can go here to see the PCA plot example: https://vinci.bioturing.com/panel/workset/build/principal-component-analysis
I made a small free web utility to perform online PCA available here :
https://web.rniapps.net/webigloo/pca/
The data can be uploaded as a tab delimited file along with it's associated metadata (refer to the sample files in the webpage) and visually explore the output.
I used to apply PAST (PAleontological STatistical software) in my research which provide very good statistics and visulization. very simple and fast software
You can perform the PCA in any statistical software. Here is the code in Python for PCA https://www.reneshbedre.com/blog/principal-component-analysis.html