estimate tumor purity from target capture sequencing

Question

[lffu_0032]

hi, everyone, is there a good way to estimate the tumor purity from target capture sequencing?i need to calculate the copy number and without the purity, the CN may be not accurate. thanks for your kind help.

Answer 1

[dariober]

The facets package detects copy number variants and gives you the purity and ploidy estimates.

If interested, I also wrote a wrapper to run the analysis as a single line command, see cnv_facets.

[lffu_0032]

thank you. i see that the facet is suit for tumor-normal pair calling, but i have only tumor-only capture data...