Optimize parameters to reduce overestimation of genome doubling

gavinha / TitanCNA

Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

GNU General Public License v3.0

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Optimize parameters to reduce overestimation of genome doubling #61

Open gavinha opened 5 years ago

gavinha commented 5 years ago

After numerous changes and tweaks to the default parameter settings over the years, it appears from my experience and from others that TitanCNA tends to overestimate genome-doubling.

1) I will adjust the default parameters to help correct for this.

2) Write a Parameter Settings and Guidelines Section in the Wiki

Highlight the arguments/parameters to change so that users can tailor the analysis to their dataset if they run into issues with the results.

TakaYamaguchi commented 5 years ago

Hi Gavin,

I've encountered this issue as well. Are you releasing the updated version anytime soon or should the commit fix the issue?

Thanks,

Taka