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This article will explain in detail how to do principal component analysis with DNA sequence in R language. The content of the article is of high quality, so the editor shares it for you as a reference. I hope you will have a certain understanding of the relevant knowledge after reading this article.

Some people have left messages asking how to do principal component analysis with DNA sequences, but I don't know at that time, but there is a general idea that is to compare the data first, and then convert the data into commonly used snp data, but it is only limited to the train of thought. I don't know how to operate it at all. I was bored on the way home today. I looked through some information saved on the computer. Found a way: you can use the R language adegenet package, the function used is fasta2genlight ()

As long as the function of fasta2genlight () function

The function fasta2genlight extracts SNPs from alignments with fasta format. Extract snp data from a matched fasta file

Let's start the actual operation.

The adegenet package needs to be installed for the first use. Run the following command directly

Install.packages ("adegenet")

The data set used in today's tweets is the built-in data set of this package. The first thing is to get the storage path of this data set.

Dfpath

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