README.md

raava

VNTR rare variant caller for danbing-tk

• Check out the danbing-tk repo for more info on genotyping VNTRs with a repeat-pangenome graph.

Usage

/$PATH_TO_RAAVA/script/rarevar.call.py \
  GF_DIR \
  GT_DIR \
  OUT_DIR \
  GN \
  FILTER \
  BR_SVM \
  BP_SVM \
  NTR \
  NTR_AUTOSOME \
  SEX \
  TH \
  TH1 \
  TH2 \
  TH3 \
  GRAPHSIZELIMIT