Hi ! I Have Been Diagnosed With Wegeners Granulomatosis. I'm

Hi ! I have been diagnosed with Wegeners Granulomatosis. I'm doing good but in November I got cdiff rom too many antibiotics. On my fourth round of Vancomycin and GI doctor wants to do fecal transplant. I'm willing but I'm afraid ill go through all that and because of Wegeners it will still come back. Any thoughts on this....