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Question: Volcano Plot help code
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gravatar for anasofiamoreira94
7 months ago by
anasofiamoreira94 • 10
anasofiamoreira94 • 10 wrote:

Good Morning, I'm sorry to disturb, but as anyone done these volcano plot? I'm only able to do the traditional one, i'm kind knew too these field. Thanks

https://ibb.co/gHD1p7
visualization plot graphics rna-seq volcano • 487 views
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modified 7 months ago by Jennifer Hillman Jackson ♦ 25k • written 7 months ago by anasofiamoreira94 • 10
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gravatar for Jennifer Hillman Jackson
7 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Which tool are you using, is it within Galaxy, and what tool are the inputs derived from? If you are following a Galaxy tutorial, please also share the link, and we might be able to help more.

Note that these plots when generated using CummerRbund SQLite output are problematic. Issue ticket here: https://github.com/galaxyproject/tools-devteam/issues/340

Current Galaxy tutorials: https://galaxyproject.org/learn/. Those in the upper section will work at Galaxy Main https://usegalaxy.org. Others may require the use of your own Galaxy with the appropriate configuration. Docker images exist for some tutorials, for example: http://galaxyproject.github.io/training-material/topics/introduction/

Thanks, Jen, Galaxy team
ADD COMMENT • link written 7 months ago by Jennifer Hillman Jackson ♦ 25k
1

Hello, I'm using r. I will check the links. Thanks, Ana Sofia

ADD REPLY • link written 7 months ago by anasofiamoreira94 • 10

If you are interested in using R within Galaxy:

For general R usage help (commands, etc) -- try a more general bioinformatics forum such as https://www.biostars.org/ or https://bioinformatics.stackexchange.com/. Or, you could just google for prior discussion/online manuals with "R volcano plot".

ADD REPLY • link modified 7 months ago • written 7 months ago by Jennifer Hillman Jackson ♦ 25k
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