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# FCSAnalyze tools
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In this WiKi we provide examples on how to analyze and process FCS and imaging data generated on Zeiss LSM microscopes using [microscopy pipeline constructor](https://git.embl.de/politi/mypic) or
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[FCSRunner](https://git.embl.de/politi/fcsrunner). The processed data can be used to generate a calibration curve for converting pixel fluorescence intensities to concentrations.
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In this WiKi we provide examples on how to analyze and process FCS and imaging data generated on Zeiss LSM microscopes using [FCSRunner](https://git.embl.de/politi/fcsrunner) or [microscopy pipeline constructor](https://git.embl.de/politi/mypic) and [Automated FCS](https://git.embl.de/politi/adaptive_feedback_mic_fiji). The processed data can be used to generate a FCS calibration curve for converting pixel fluorescence intensities to concentrations and protein numbers.
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The order of the processing step is
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The processing steps are
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[**1. Generate bleach corrected correlation functions using Fluctuation Analyzer 4G**](./FA_Load_and_Correlate)
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[**I. Generate bleach corrected correlation functions using Fluctuation Analyzer 4G**](./FA_Load_and_Correlate)
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[**2. FCSImageBroswer browse through image and FCS positions**](./Fcsimagebrowser)
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[**II. FCSImageBroswer browses through images and FCS positions**](./Fcsimagebrowser)
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[**3a. Fit F(C)CS data with FitFCSM**](./Fcsfitm)
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[**IIIa. Fit F(C)CS data with FitFCSM**](./Fcsfitm)
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[**3b. Fit F(C)CS data with Fluctuation Analyzer 4G (FA)**](./Fa_fit_fcs) (alternative to 3a)
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[**IIIb. Fit F(C)CS data with Fluctuation Analyzer 4G (FA)**](./Fa_fit_fcs) (alternative to 3a)
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[**4. FCSCalibration computes the parameters of the calibration curve**](./Fcscalibration)
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[**IV. FCSCalibration computes the parameters of the calibration curve**](./Fcscalibration)
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[**5. FCSCalibrateImage converts fluorescence intensities to concentrations and number of proteins**](./Fcscalibrateimage)
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[**V. FCSCalibrateImage converts fluorescence intensities to concentrations and number of proteins**](./Fcscalibrateimage)
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## Author
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Antonio Politi, EMBL, July 2017
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