How can I use PoN when running vardict?
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4.0 years ago
oghzzang ▴ 40

How can I use PoN when running vardict?

I have PoN file and only tumor sample.

I want to run vardict with PoN.

How can I do that???

cf. vardict tumor only sample script

./vardict -G ~/ref/hg19.fasta -f 0.01 -N [Tumor sample] -b ./[Tumor bam] -c 1 -S 2 -E 3 -g 4 ./[tumor bed] | teststrandbias.R | var2vcf_valid.pl -N [Tumor sample] -E -f 0.01

vardict panelofnormal • 1.3k views
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