Get information about the clonotype counts grouped by transcriptome state(cell type).

Dataframe with clonotype counts grouped by transcriptome state(cell type).

clonofreq.trans.data(all.contig.annotations, history, trans.names, top.n)

Arguments

all.contig.annotations: The output dataframe all_contig_annotation from function simulate.repertoire.
history: The dataframe history from simulate output.
trans.names: The names of cell types which are used in transcriptome.switch.prob argument in the simulation.
top.n: The top n abundant clones to be shown in the plot. If missing, all clones will be shown.

a dataframe with clonotype counts grouped by transcriptome state(cell type).