deletions | additions       diff --git a/Method.tex b/Method.tex  index af3d878..40db2b6 100644  --- a/Method.tex  +++ b/Method.tex 
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The software camera parameters were set to 80.0~nm pixel size and 36 photoelectrons per A/D count. The base level varied between image stacks due to fluctuations in the EBCCD temperature, and was set to the average minimum grey value for the image stack in the range of 100-140 A/D counts. A wavelet (b-spline) image filter was applied with order of 3 and scale of 2.0. For the approximate localisation of the events, the centroid of connected components method was used with a peak intensity threshold (PIT) of 2*std(Wave.F1) for the USAF data, and a PIT of 1.5*std(Wave.F1) for cell data, with the watershed algorithm enabled for all data.  Maximum All sub-pixel localisation methods offered by ThunderSTORM (Maximum  Likelihood (ML) and Least squares (LS)  fittingwas used  with a both Gaussian (G) and Integrated  Gaussian (IG)  point-spread function (PSF), Centroid of local neighborhood, Radial Symmetry) were tested,  withstandard deviation (SD) set to 1.0 pixels. For fast processing with adequate results the PSF  fitting radius was set to 2 pixels, and parameters optimised  for optimal maximum  photon detection count  and separation minimum likelihood  of overlapping events the radius was set to 7 pixels. Multiple-emitter fitting analysis (MFA) was tested with a maximum of 2 molecules per fitting region with a model selection threshold (p-value) of 10$^{-6}$. When MFA was enabled, ThunderSTORM's ``remove duplicates'' post-processing tool was applied with a distance threshold of 160~nm, and ``intensity$>$4000'' filter was applied to the USAF data and ``intensity$>$3000'' filter to the cell data. false photon event recognition.  A least squares (LS) For the best results, ML  fittingmethod  was also used with a Gaussian PSF, with standard deviation (SD) set to 1.0 pixels. For fast processing with adequate results the PSF fitting radius was set to 2 pixels, and for optimal photon detection and separation of overlapping events the radius was set to 7 pixels. Multiple-emitter fitting analysis (MFA) was  tested with a maximum of 2 molecules per fitting region with a model selection threshold (p-value) of 10$^{-6}$. When MFA was enabled, ThunderSTORM's ``remove duplicates'' post-processing tool was applied with a distance threshold of 160~nm, and ``intensity$>$4000'' filter was applied to the USAF data and ``intensity$>$3000'' filter to the cell data.  Results are also shown for LS fitting method with  an integrated Gaussian (IG) IG  PSF with a 3 pixel fitting radius and 1.6 pixel SD, and a radial symmetry localisation method with 2 pixel estimation radius.