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With the recent developments in single-molecule localisation microscopy, there is a large choice of well-characterized and user-friendly programs and algorithms freely available. It has been shown previously that when applied to centroiding photon counting imaging data from an MCP-intensified camera system, these programs can produce results with better resolution, lower FPN, and in some cases even better event recognition than the traditional photon centroiding algorithms. In this work we have shown that these programs produce excellent results when applied to centroiding much smaller and dimmer single photon events from an EBCCD camera with significant background noise. It was also demonstrated that multi-emitter fitting analysis can be applied to separating overlapping photon events -- an important consideration for fluorescence lifetime imaging where the count rate is usually limited by the need to avoid overlapping photon events.