# This file contains information on how to process reference data sets.
#
# dataset - name of data set, this label will be printed.
# type    - True Positives (TP) and False Positives (FP)
#           overlap percentages labeled as (Precision, Sensitivity) and (False Discovery Rate, Type I Error) respectively
#         - annotation
#           file is used for GENCODE annotation of frame shift and non frame shift Indels
# filter  - filter applied to variants for this particular data set
# path    - path of indexed BCF file
#dataset        type              filter                     path
1000g           TP                N_ALLELE==2&&VTYPE==SNP    /net/fantasia/home/atks/ref/vt/grch38/1000G.v5.snps.indels.complex.svs.sites.bcf
dbsnp           TP                N_ALLELE==2&&VTYPE==SNP    /net/fantasia/home/atks/ref/vt/grch38/dbSNP138.snps.indels.complex.sites.bcf
gencode_v27     cds_annotation    .                          /net/fantasia/home/atks/ref/vt/grch38/gencode.v27.cds.bed.gz
dust            cplx_annotation   .                          /net/fantasia/home/atks/ref/vt/grch38/mdust.bed.gz
rmsk            repeat_annotation .                          /net/fantasia/home/atks/ref/vt/grch38/rmsk.bed.gz