# 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 ocoding VNTRs.
# filter  - filter applied to variants for this particular data set.
# path    - path of indexed BCF file.
#dataset      type              filter             path
trf           TP                VTYPE==VNTR        /net/fantasia/home/atks/ref/vt/grch37/trf.sites.bcf
trf_lobstr    TP                VTYPE==VNTR        /net/fantasia/home/atks/ref/vt/grch37/trf.lobstr.sites.bcf
trf_repeatseq TP                VTYPE==VNTR        /net/fantasia/home/atks/ref/vt/grch37/trf.repeatseq.sites.bcf
trf_vntrseek  TP                VTYPE==VNTR        /net/fantasia/home/atks/ref/vt/grch37/trf.vntrseek.sites.bcf
codis+        TP                VTYPE==VNTR        /net/fantasia/home/atks/ref/vt/grch37/codis.strs.sites.bcf
gencode_v27   cds_annotation    .                  /net/fantasia/home/atks/ref/vt/grch37/gencode.v27.cds.bed.gz
dust          cplx_annotation   .                  /net/fantasia/home/atks/ref/vt/grch37/mdust.bed.gz
rmsk          repeat_annotation .                  /net/fantasia/home/atks/ref/vt/grch37/rmsk.bed.gz