Skip to content

Fix "no such property, 'protein_ID'" for `pantools add_variants`

Workum, Dirk-Jan van requested to merge fix_no_protein_id_add_variants into develop

Problem

With pantools add_annotations, both mRNA and transcript features are treated as mRNA. However, they don't always have CDS nodes connected. This causes the following properties to missing in mRNA nodes in this case: "protein_ID", "protein_length", "nucleotide_sequence", "protein_sequence". For pantools add_variants, this causes issues if the mRNA node to which the variant nodes are connected lacks these properties.

Fix

Skip variant node if "protein_ID" is unavailable.

Merge request reports

Loading