NASA[0][3] and MIT[1][2] both agree that Apollo 11 ran her software (where "her software" means "software she and her team wrote", not "software she wrote entirely on her own"). The TechCrunch article echoes them, and I haven't seen anything in the article or this thread suggesting she did everything single-handedly.
[0] https://www.nasa.gov/home/hqnews/2003/sep/HQ_03281_Hamilton_...
[1] https://news.mit.edu/2016/scene-at-mit-margaret-hamilton-apo...
[2] https://news.mit.edu/2009/apollo-vign-0717
[3] https://www.nasa.gov/50th/50th_magazine/scientists.html