Skip to main content

Table 1 Types of variants in the Leucegene truth sets

From: Finding a suitable library size to call variants in RNA-Seq

Mutation type Min VAF Mean VAF Max VAF N
Composite indel 0.06 0.25 0.56 9
Long insertion 0.41 0.5 0.64 3
Short deletion 0.09 0.24 0.38 2
Short insertion 0.07 0.33 0.84 15
SNVs 0.05 0.37 0.97 58
Indel-not reported 0.84 0.84 0.84 1
  1. Variants used as the truth set were previously validated in a set of 45 CBF-AML RNA-Seq samples [9]. Variant types are inferred from the information in the published study and by the variant calls performed on the initial samples. A short indel (insertion/deletion) is an indel < 10 bp long; composite indels are mutations including both inserted and deleted nucleotides; SNVs are single nucleotide variants