alluvialClones()

[rana228]

Hi,

I am working on a scRNA data and thanks to your package I have mapped TCR clones to it. And now I would like to track all paired clones (clonal distribution) accross different timepoints in CAR pos and CAR neg Tcells (see attached plot). alluvialClones() gave me the plot but I want to display Timepoints on x-axis not on y-axis and color = "Type_Alloreactive_Tcells" i.e CARpos and CAR neg Tcells. I tried but couldn't find a solution for this. Is there a way to modify this function or any other package to generate this plot.
I have attached a sample desired plot (i want to use "Type_Alloreactive_Tcells" instead of clusters here) and the plot that I generated using your package.

Thank you for your help in advance.

Best,
Rana

[ncborcherding]

Hey Rana,

Thanks for reaching out - as of now alluvialClones() creates the stratums (the bars along the x-axis) based on the variable names. If you want to create a graph like the second image, you will need to make new variables in your meta data associate with each of the timepoints in Timepoint_final.

Hope that helps,

Nick