creisle
commented
2 years ago Hi Oh,
Sorry for the slow response.
Q1. If I change reference or annotated files, can I visualize viral integrations?
You will be able to visualize any fusion proteins should you include a "chromosome" for the viral sequence in the reference and the viral genes in the annotations file
Q2. I found the following fusion. (the Promoter of TP53 gene: coding region of CTNNB1 gene). But, in this case, the picture is not drawn with the default option. Is there a way to draw even if one partner is in non-coding region?
The visualizations are primarily intended to display gene-gene fusions so drawing of synonymous or intergenic fusions is off by default, however if you set the following both to False you will produce all drawings
https://mavis.readthedocs.io/en/latest/configuration/settings/#draw_fusions_only https://mavis.readthedocs.io/en/latest/configuration/settings/#draw_non_synonymous_cdna_only
Hope that helps!
Dear MAVIS team.
Hi I'm Oh.
I have two questions. Q1. If I change reference or annotated files, can I visualize viral integrations?
Q2. I found the following fusion. (the Promoter of TP53 gene: coding region of CTNNB1 gene) But, in this case, the picture is not drawn with the default option. Is there a way to draw even if one partner is in non-coding region?
Many thanks