Bug In fishPlot Function: Clone Arising Outside Of Parent

[armonazizi]

Hi, I'm running into a bug where a clone is arising outside of its assigned parent. Im running the following code (a slight modification from the given example):

library(fishplot)

timepoints=c(0,100,600) 

frac.table = matrix(
  c(100,80,60,2,
    8,4,0,1,
    60,50,0,50),
  ncol=length(timepoints))

parents = c(0,1,2,2)

fish = createFishObject(frac.table,parents,timepoints=timepoints)

fish = layoutClones(fish)

fishPlot(fish,shape="spline",vlines=timepoints, 
         vlab=c("DX","CR","REL"))

Which produces the following plot:

The yellow clone (clone 4) has an assigned parent clone 2, but it originates in clone 1. I'm not sure if this is just due to some parameters that I incorrectly used, but I can't seem to fix it. Let me know if there's a workaround or something else I can do to correctly plot examples like this.

Thanks!

Armon

[chrisamiller]

Yes, that's a thing that can happen in edge cases. There is a pad.left parameter on the fishPlot function that can be modified to help with that - I'd suggestion reducing its value to see what happens as a first pass.

[armonazizi]

Unfortunately, that didn't work. Decreasing and increasing the value just compresses what is already being plotted (it just changes the distance between where clone 1 starts and clone 2 starts). I think one way to approach this would be to manually set the time/position where each clone arises. Is that possible in the current iteration of the code?

[chrisamiller]

One option would be to add an additional, unlabeled timepoint just to the right of your DX, and have your yellow clone start there.