Hello, I'm using VEP tools to annotate human WES data (GRCh37) and as many of us know it provides a prediction for each transcript per row.
- Can the tool (or a script?) provide info for one variant per row, ie including all the transcripts in one cell rather than many rows ?
- can we restrict the HGVS annotations to only known protein (NM id ) and known mRNA (NM id) only ?
I tried using annovar but the HGVS annotations are just not according to the nomenclature for many variants, esp INDELS.