how to make age a continuous parameter?

[kunalkathuria]

Hello!

Thank you for all your responses thus far. I now have output from PyWGCNA and am thinking of different analyses. Is it possible to include age as a continuous variable in the module-trait relationship (0-100)? I see that 'Age' seems to be treated differently by default compared to the other traits as per the tutorial, https://github.com/mortazavilab/PyWGCNA/blob/main/tutorials/Quick_Start.ipynb?

Thanks!

[nargesr]

Hello:)

I believe if you define the color as a continuous color map (i.e you can use mpl.cm.ScalarMappable) you should be fine.

please let me know if you got any error

[kunalkathuria]

Sorry, I meant in the correlation matrix leading to the module-trait relationship heatmap. Can the dependence be made sensitive to age as a continuous variable (i.e. correlation with high/low values) rather than discrete types as in PrimaryDx, Tissue etc.?

[nargesr]

hmm I'm not sure if you can interpret the results in that way since you couldn't figure out what high correlation means but you can have categorical variables with a sequential relationship for example divide your samples into three categories: young, juvenile, old

if you think you still want to give it a shot and try using the continuous variables you can try to calculate the Pearson correlation using scipy.stats.pearsonr and sns.heatmap to plot it

[kunalkathuria]

Yea, I was thinking along the same lines...cool, thanks a lot for the input!