I've ran AERON to completion but I noticed something odd in the fusionread_table when I try use the GTF to add gene names to the output file (based on transcript ID). The gene_id (col4) sometimes matches the gene for transcript_id in col7 and other times the gene for transcript_id in col9.
When I count the number of times gene-id1 doesn't match the transcript_id1 and the number of times gene-id2 doesn't match transcript_id2, there's a discrepancy so it's not even a 1-1 error.
Any idea why this isn't consistant? I've attached some examples.
Hello,
I've ran AERON to completion but I noticed something odd in the fusionread_table when I try use the GTF to add gene names to the output file (based on transcript ID). The gene_id (col4) sometimes matches the gene for transcript_id in col7 and other times the gene for transcript_id in col9.
When I count the number of times gene-id1 doesn't match the transcript_id1 and the number of times gene-id2 doesn't match transcript_id2, there's a discrepancy so it's not even a 1-1 error.
Any idea why this isn't consistant? I've attached some examples.
Thank you, Melissa
Error_examples_fusionread_table_GM24143_GRCh38cdna_GRCh38.txt Error_examples_fusionread_table_GM24143_GRCh38cdna_GRCh38.xlsx