A fluorescence image analyzing apparatus configured to apply the fluorescence in situ hybridization method comprising: a light source (120,121,122,123) configured to emit light to a sample, the sample including a plurality of cells labeled with a fluorescent dye at a target site; an imaging unit configured to capture a fluorescence image of each of the cells that emit fluorescence by being irradiated with the light; a processing unit configured to process the fluorescence image captured by the imaging unit for each cell; and a display unit configured to display the fluorescence image processed by the processing unit, wherein the processing unit is configured to perform: an extraction process of extracting a plurality of bright spots having different pixel values among each bright spot, wherein a pixel value is a value of luminance, from the fluorescence image including the target site, a changing process of changing a pixel value of at least one of the extracted bright spots based on the pixel values of each bright spot, a display process of displaying the fluorescence image whose pixel value is changed on the display unit, wherein, in the changing process, the processing unit is configured to increase a pixel value of the at least one of the plurality of bright spots, when the pixel value of the at least one of the bright spots is smaller than the pixel values of the other bright spots. a light source (120,121,122,123) configured to emit light to a sample, the sample including a plurality of cells labeled with a fluorescent dye at a target site; an imaging unit configured to capture a fluorescence image of each of the cells that emit fluorescence by being irradiated with the light; a processing unit configured to process the fluorescence image captured by the imaging unit for each cell; and a display unit configured to display the fluorescence image processed by the processing unit, wherein the processing unit is configured to perform: an extraction process of extracting a plurality of bright spots having different pixel values among each bright spot, wherein a pixel value is a value of luminance, from the fluorescence image including the target site, a changing process of changing a pixel value of at least one of the extracted bright spots based on the pixel values of each bright spot, a display process of displaying the fluorescence image whose pixel value is changed on the display unit, wherein, in the changing process, the processing unit is configured to increase a pixel value of the at least one of the plurality of bright spots, when the pixel value of the at least one of the bright spots is smaller than the pixel values of the other bright spots. an extraction process of extracting a plurality of bright spots having different pixel values among each bright spot, wherein a pixel value is a value of luminance, from the fluorescence image including the target site, a changing process of changing a pixel value of at least one of the extracted bright spots based on the pixel values of each bright spot, a display process of displaying the fluorescence image whose pixel value is changed on the display unit, wherein, in the changing process, the processing unit is configured to increase a pixel value of the at least one of the plurality of bright spots, when the pixel value of the at least one of the bright spots is smaller than the pixel values of the other bright spots.