about MAFTOOLS and ComplexHeatmap
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Bogdan ▴ 620
@bogdan-2367
Last seen 6 weeks ago
Palo Alto, CA, USA

Dear all,

please could you let me know on the following : as the function Oncoplot() in the package "maftools" is based on the Oncoprint() function in ComplexHeatmap, does it imply that any options from Oncoprint() we can use for Oncoplot() ?

thank you,

-- bogdan

 

complexheatmap maftools • 1.0k views
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anand_mt ▴ 80
@anand_mt-10016
Last seen 6 months ago

Hi Bogdan,

maftools uses complexheatmaps oncoprint source code but with little modifications to automate the plotting. However you can run oncoplot function with `writeMatrix = TRUE` which will write the underlying matrix to an output file. This file can be directly used as an input to complexheatmaps `conoprint` function. See ?oncoplot for details. Hope this helps.

-Anand.

 

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Thank you Anand ;)

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Hi Anand, please may I ask : how shall i specify for Oncoplot a specific order of the samples to be displayed ?

thank you,

-- bogdan

 

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