Non-human chromosome length

[peterpdu]

Hi Gavin,

I'm running TitanCNA/ichorCNA on mouse exome data with the latest version of TitanCNA/ichorCNA, and the plots for ichorCNA have the incorrect chromosome length. This was not a problem with an older version of ichorCNA, so I was wondering if I could provide chromosome length files somewhere.

Thanks, Peter

[gavinha]

Hi @peterpdu

You might want to consider modifying the following lines to use the mm genome

https://github.com/gavinha/TitanCNA/blob/c4f94ee10e74e83869c9585501a3dacfee3464cc/scripts/R_scripts/titanCNA.R#L184-L189

This is untested and may cause issues throughout the rest of the main R script.

-Gavin