How to draw evolutionary tree with tpm data

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17 months ago

yoser4 ▴ 10

Hello everyone. I now have a stringtie of tpm matrix (RNA-seq) data. I would like to know is there any way to draw an evolutionary tree with this data? (My idea is to use this data to draw an evolutionary tree and visualize the clustering of different organizations. I want to use Rstudio's ggtree package to draw a graph, but I don't know how to generate the tree file that ggtree needs) I would like advice on tree file generation and use of the ggtree package. Any help would be greatly appreciated.

R ggtree evolutionary-tree tpm • 628 views

ADD COMMENT • link updated 17 months ago by GenoMax 141k • written 17 months ago by yoser4 ▴ 10

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enter image description here

ADD REPLY • link 17 months ago by yoser4 ▴ 10

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This is a screenshot of part of the file I want to convert into a tree file, which is a very common RNA-seq process, using stringtie to get the tpm matrix

ADD REPLY • link 17 months ago by yoser4 ▴ 10

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evolutionary tree with tpm data

Evolutionary word has a specific meaning scientifically. There is nothing "evolutionary" that can be determined from RNAseq data. You are perhaps thinking of a pathway network?

ADD REPLY • link 17 months ago by GenoMax 141k

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