Bad clustering with combines 0 CCF and 1 CCF mutations

[SebastianHollizeck]

Hi,

I have been using PhylogicNDT on multiple samples now and on one I realised a very weird clustering result, where variants with 0 CCF are combined with 1 CCF mutations

So this TP53 mutation, which doesnt have any read support in sample 1 and 4 is clustered together with variants with read support and subsequently is shown at 100% and 50% CCF, even though it isnt present at all in these samples.

I have played around with the parameters, but nothing seems to affect this clustering.

The pictures I posted here were generated with:

./PhylogicNDT.py Cluster -sif /dawson_genomics/Projects/CASCADE/CA80/analysis/joint/PhylogicNDT/inputs/samples.sif --impute --n_iter 1000 --maf_input_type calc_ccf -i CA80 --driver_genes_file ~/PhylogicNDT/data/supplement_data/Driver_genes_v1.0.txt --Pi_k_r 10 --Pi_k_mu 50

And the version is the latest from this github.

What can I adjust to make the clustering more granular, because there are 850 variants in this cluster.

Kind regards,
Sebastian