Hi, I'm unclear on how the package handles genes that aren't assigned to any module. I see that there is a naColor = 'grey' argument, however the labels2colors function also has a zeroIsGrey = 'True' argument. Does this mean that genes whose module label is 0 are unassigned? What if a module has label 0, but the color is not 'grey'? For example, I am getting this:
WGCNA.datExpr.var[['dynamicColors', 'moduleColors', 'moduleLabels']].value_counts()
dynamicColors moduleColors moduleLabels
black black 0 4702
silver silver 7 2611
gainsboro gainsboro 3 2154
whitesmoke whitesmoke 8 1652
darkgrey darkgrey 1 1313
dimgrey dimgrey 2 899
rosybrown rosybrown 6 714
indianred indianred 4 114
lightcoral lightcoral 5 43
Name: count, dtype: int64
Is the (black) module 0 an actual module or is it supposed to be the gray module?
Thank you!
Hi, I'm unclear on how the package handles genes that aren't assigned to any module. I see that there is a
naColor = 'grey'argument, however thelabels2colorsfunction also has azeroIsGrey = 'True'argument. Does this mean that genes whose module label is 0 are unassigned? What if a module has label 0, but the color is not 'grey'? For example, I am getting this:Is the (black) module 0 an actual module or is it supposed to be the gray module?
Thank you!