Question

How can I compare the output of two RNASeq tools?

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7.7 years ago

mirza ▴ 180

Hi, I did using RNA Seq/ DEG analysis using 2 different tools and here is the summary of the results Tool1 Tool2 Total Genes 2960 20877 Up (8.3 to 0.185 ) 1584 8257 Down (-10.33 to -0.35) 1376 12620 Upregulated DEGs (log2fc>2.0) 794 1265 Downregulated DEGs (log2fc<-2.0) 844 1067

This might sound real lame but how to compare the results of these 2 in percent in context of log2fc of up and down regulated? This result is in front of me but maybe my mind is not working. I want to say that the results in context of up and down DEGs is comparable.

compare output • 1.6k views

ADD COMMENT • link updated 4.3 years ago by Liang Sun ▴ 10 • written 7.7 years ago by mirza ▴ 180

score 0 · Answer 1 · 2016-08-24

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7.7 years ago

udi.landau ▴ 40

Maybe a Venn diagram? (2 actually, one for up and one for down)

ADD COMMENT • link 7.7 years ago by udi.landau ▴ 40

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@udi.landau yes, exactly, dats how I did it. Thank you.

ADD REPLY • link 7.7 years ago by mirza ▴ 180

score 0 · Answer 2 · 2020-01-12

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4.3 years ago

Liang Sun ▴ 10

you can use this online tool DiVenn which will generate a nice graph https://divenn.noble.org

ADD COMMENT • link 4.3 years ago by Liang Sun ▴ 10

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Please consider making a Tool post to advertise your tool instead of refreshing multiple years-old threads. Thank you.

ADD REPLY • link 4.3 years ago by ATpoint 81k