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Question: estimate tumor purity from target capture sequencing
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gravatar for lffu_0032
17 months ago by
lffu_0032 • 60
lffu_0032 • 60 wrote:

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.
estimation target capture sequencing tumor purity • 523 views
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modified 17 months ago by dariober ♦ 11k • written 17 months ago by lffu_0032 • 60
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gravatar for dariober
17 months ago by
dariober ♦ 11k
WCIP | Glasgow | UK
dariober ♦ 11k wrote:

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.

ADD COMMENT • link written 17 months ago by dariober ♦ 11k

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

ADD REPLY • link written 13 months ago by lffu_0032 • 60
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