Dear developers, we are using Decon to analyse our sample enriched with illumina trusight cancer panel.
We created a bed with a limited number of genes and we correctly created the corresponding custom file (cancer_panel_for_Decon_sorted.txt) . But we encountered an error when a cnv is present in BRCA1 gene, it is always associated to RAD51C gene but the coordinates in the txt files are correct and are the ones of BRCA2 (pdf file and CNVCalls_all.txt).
I tried launching Decon with only BRCA gene and the cnv is correctly associated and also considering only RAD51C the cnv is not detected.
Is there an explanation for this behaviour? I attached also a screenshot of some warning that the script raise.
Dear developers, we are using Decon to analyse our sample enriched with illumina trusight cancer panel. We created a bed with a limited number of genes and we correctly created the corresponding custom file (cancer_panel_for_Decon_sorted.txt) . But we encountered an error when a cnv is present in BRCA1 gene, it is always associated to RAD51C gene but the coordinates in the txt files are correct and are the ones of BRCA2 (pdf file and CNVCalls_all.txt). I tried launching Decon with only BRCA gene and the cnv is correctly associated and also considering only RAD51C the cnv is not detected. Is there an explanation for this behaviour? I attached also a screenshot of some warning that the script raise.
Thanks a lot for the help