Changing gradient color and font size in plotFunction SQMtools

[afsanarupa]

Hi, I want to change the gradient color and font size in plotFunction. Can you suggest me a way to change it in R studio. I tried edit(plotFunction) and trace(plotFunction) but they didn't seem to work

[fpusan]

As per the documentation plotFunction(SQM, gradient_col =c(color1, color2))

[fpusan]

plotFunction(SQM, gradient_col = c(color1, color2), base_size = 20)

[afsanarupa]

Hi, sorry for bothering again. I solved the previous one myself. But actually I want to make the gene names in Y axis larger. using larger base_size mingles my sample names on x axis. Is there a way to just increase the font size on Y axis?

[fpusan]

No, sorry, for that degree of customization you'll need to make the plot yourself. The table is at SQM$functions$KEGG$tpm

[afsanarupa]

okay, Thank you

[afsanarupa]

Hi, what should I do, If want to export a table containing specific functions?

[fpusan]

Use normal R syntax to select the row names with the functions you want. We provide the convenience function exportTable (easier to use than R's write.table) for actually writing things to a file

El mar., 17 ene. 2023 11:29, afsanarupa @.***> escribió:

Hi, what should I do, If want to export a table containing specific functions?

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[afsanarupa]

Thanks, but the problem is SQM$functions$KEGG$tpm has no name/function column, only KEGG id and tpm values.

[fpusan]

Yes, the KEGG id / function name relationships are in SQM$functions$KEGG_names