Question

Tumor cell percentage detection tool

1

Entering edit mode

3.1 years ago

MS ▴ 40

Hi,

I have done Gatk mutect2 pipeline and get annovar results for ffpe and cfdna samples. I want to determine tumor percentage in my data.

I used maftools inferheterogeneity function but it doesnt give tumor percentage.

I confused a bit can I use maftools results for tumor percentage estimation ör can anyone suggest a tool for this purpose?

cfdna Tumor maftools • 870 views

ADD COMMENT • link updated 18 months ago by Ram 44k • written 3.1 years ago by MS ▴ 40

score 0 · Answer 1 · 2022-04-01

0

Entering edit mode

2.7 years ago

Getting there ▴ 120

A few tools will do this, control-FREEC, THetA, CloneCNA, ASCAT

ADD COMMENT • link 2.7 years ago by Getting there ▴ 120

score 0 · Answer 2 · 2022-04-01

0

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2.7 years ago

iraun 6.2k

I use FACETS for calculating tumor purity :).

ADD COMMENT • link 2.7 years ago by iraun 6.2k