search

hdng / clonevol

Inferring and visualizing clonal evolution in multi-sample cancer sequencing
GNU General Public License v3.0
144 stars 45 forks source link

Can I still use clonevol on my data #39

Open MaryGoAround opened 4 years ago

MaryGoAround commented 4 years ago

Hi

I have 50 patients who have responded to chemotherapy from which 17 samples are pre-treatment biopsies and 33 patients post-treatment resections. The pre and post samples are not matched. I want to identify resistant clones, can I still use your software?

Thank you

hdng commented 4 years ago

If you want to analyze individual patients' clonal evolution/admixture using single sample, ClonEvol is still useful. Then you can compare the clonal evolution/admixture between pre- and post-treatment groups and see if there are differences. This may be an useful analysis in addition to a direct comparison of mutational profile between the two groups.

MaryGoAround commented 4 years ago

Sorry can I use your software for oesophageal adenocarcinoma? Because I noticed people saying mono-clonal phrase when using your software

I am not sure my cancer is mono or polyclonal

hdng commented 4 years ago

ClonEvol supports both mono- and poly-clonal model cancer initiation (parameter cancer.initiation.model='polyclonal' in infer.clonal.models). Is that what you meant?

MaryGoAround commented 4 years ago

Yes, thank you

Sorry I run your software on 17 responders to chemo and 33 non-responders

All non matched of course

I got this model.pdf

res are responders and pre are non responders

But model seems too confusing

I don't know where I have done wrong and why I getting this weird plot