R custom visual using a shape file

I am trying to create a more advanced map visual than the map visual options in power bi by using R (include colour saturation key and labels). When I import the shapefile as a data source instead of in the R visualisation script, the R visualisation is plotting incorrectly(differently to if you ran the full script through R), appearing like some sort of rendering issue. Has anyone else encountered this problem and know of any solutions? I cannot bring the shapefile into powerbi via the R visualisation script as power bi will not publish the visual. Thanks