Question: How to do a PCA plot on the exome data using different library kits?
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gravatar for mullin.yu
10 weeks ago by
mullin.yu0
mullin.yu0 wrote:

Hi,

I have around 1000 exome data (fastq, bam, vcf). I want to a PCA plot on the exome data using different library kits for the QC step. I would expect the PCA plots showing clusters of samples using different library kits.

May I know any suggestion? Any software package can help? Use BAM or VCF file?

Thanks a lot!

Regards, Mullin

ADD COMMENTlink written 10 weeks ago by mullin.yu0

Produce PCA bi-plot for 1000 Genomes Phase III - Version 2

This should give you an idea.

ADD REPLYlink written 10 weeks ago by ATpoint34k
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