Error in Minimum Spanning Network

[Miller Lehner]

I am having trouble for generating the minimum spanning network.

There is the following error message:

“Error in gray(adjustcurve(E(mst)$weight, glim = glim, correction = gadj,  : 

  invalid gray level, must be in [0,1].”

I wonder if anyone know what it is and a way to solve it.

Thanks !

[Zhian Kamvar]

Hi,

This error often appears when there are samples with a large amount of missing data. This can cause missing values in the distance matrix needed to construct the minimum spanning network. You might be able to fix this by removing the genotypes with a large amount of missing data from the analysis:

missingno(myData, type = "genotype", cutoff = 0.51)

Hope that helps.

Zhian

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