Principle component analyses PCA

Question

[saj98]

Hello everyone

I have RNA seq data and I would like to do PCA. Do know any useful tutorial which can help me.

Thanks Shaima

[WouterDeCoster]

Also, don't forget to follow up on this question: ggplot2 error message

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Answer 1

[WouterDeCoster]

I find this youtube explanation from StatQuest quite informative.

[saj98]

Thanks for the link, I am looking for steps to plot my data

[WouterDeCoster]

Have you considered using google? https://tgmstat.wordpress.com/2013/11/28/computing-and-visualizing-pca-in-r/

[saj98]

I did, but I could not get similar figure. The plot comes blank or give me only legends.

[WouterDeCoster]

Then post your full code and we can troubleshoot. Please make your questions as specific as possible.

Answer 2

[theobroma22]

There are many ways to do this. The Biostars community has answered this question many a time. Here is one of them: A: PCA plot of RPKM data from RNA-Seq dataset

[saj98]

Thank you so much, this answer was useful. Also I found learning you tube which is very useful. I am sharing them with you.