search

broadinstitute / ichorCNA

Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
GNU General Public License v3.0
158 stars 88 forks source link

ISSUES WITH LOGR INFINITE VALUE #126

Open Mariamamghar1 opened 10 months ago

Mariamamghar1 commented 10 months ago

I am running ichorcna as a tool to analyze my cfDNA data WGS. I do have an issue. One of the further analysis I would like to perform is to run GISTIC to get a bit more information on the data, and I need the logR copy number value, which in some of my samples appears as infinite. Could you support me with the? Do you have an idea of which value I could replace instead? sample with inf.txt

brmprnk commented 6 months ago

Hey there, have you found a solution to your problem already? I'm running into the same issue and cannot determine the reason for the infinite values. Thanks!

Mariamamghar1 commented 6 months ago

Hey there, have you found a solution to your problem already? I'm running into the same issue and cannot determine the reason for the infinite values. Thanks!

No, i did not find a solution and no one replied to my question. still stuck with it