added coordinates to fusion transcript result file

mskcc · Jul 25, 2023 · 0b1e0e3 · 0b1e0e3
1 parent 183c6b0
commit 0b1e0e3
Showing 1 changed file with 4 additions and 0 deletions.
diff --git a/agfusion/model.py b/agfusion/model.py
@@ -691,6 +691,8 @@ def save_tables(self, out_dir="."):
                 "3'_gene",
                 "5'_transcript",
                 "3'_transcript",
+                "5'_breakpoint",
+                "3'_breakpoint",
                 "5'_strand",
                 "3'_strand",
                 "5'_transcript_biotype",
@@ -720,6 +722,8 @@ def save_tables(self, out_dir="."):
                     transcript.gene3prime.gene.gene_name,
                     transcript.transcript1.id,
                     transcript.transcript2.id,
+                    transcript.gene5prime.gene.junction,
+                    transcript.gene3prime.gene.junction,
                     transcript.transcript1.strand,
                     transcript.transcript2.strand,
                     transcript.transcript1.biotype,