I'm new to bioinformatics and I wanted to see if I could get an opinion on my PCA analysis (hopefully the image is embedded). I have 7 samples that seem to cluster quite well. Can I say that there's more variance between E16.5 P and E16.5 Co in comparison to E16.5 P and E16.5 SC? And are there any inferences I can make on the E16.5 Co and E16.5 SC based on the PCA analysis (in comparison to the variance between E16.5 P and E16.5 Co or E16.5 P and E16.5 SC).
I know PCA is not the best way to make such comparisons, so is there an analysis you could suggest for me to compare between the E16.5 P, Co and SC? I want to say P is more similar to SC than C is to SC and make inferences between P and C. I was trying to do this with Venn diagrams, but was finding it a bit difficult and thought I'll see if anyone has any suggestions.
Thanks so much!
