I'm having trouble annotating a BED allele-like database with VarNote Annotation. Here's what I'm working with:
Command Used: --d-files:bedAllele,tag=local_freq,mode=1,index=TBI local.freq.sorted.bed.bgz -A VarNote.all_dbs.annoc
VarNote.all_dbs.annoc:
@local_freq
cols=[CHROM, START, END, REF, ALT, local_freq]
fields=[local_freq]
out_names=[local_freq:local_freq]
The Problem:
VarNote throws an error saying: InvalidArgumentException: Unknown field name: local_freq.
I checked the documentation but couldn't find any examples of how to properly format the cols parameter for BED allele-like databases.
Question:
How should I structure the cols parameter to correctly annotate this BED file? Any guidance would be greatly appreciated!
Thanks in advance for your help!
I'm having trouble annotating a BED allele-like database with VarNote Annotation. Here's what I'm working with:
Command Used: --d-files:bedAllele,tag=local_freq,mode=1,index=TBI local.freq.sorted.bed.bgz -A VarNote.all_dbs.annoc
VarNote.all_dbs.annoc:@local_freq
cols=[CHROM, START, END, REF, ALT, local_freq]
fields=[local_freq]
out_names=[local_freq:local_freq]
The Problem:
VarNote throws an error saying: InvalidArgumentException: Unknown field name: local_freq.
I checked the documentation but couldn't find any examples of how to properly format the
colsparameter for BED allele-like databases.Question:
How should I structure the
colsparameter to correctly annotate this BED file? Any guidance would be greatly appreciated!Thanks in advance for your help!