1. Process a WT data with FA to obtain WT.res. A detailed explanation of FA analysis procedure including [correlations calculation](https://git.embl.de/grp-ellenberg/FCSAnalyze/-/wikis/Fa_Load_and_Correlate) and [fitting](https://git.embl.de/grp-ellenberg/FCSAnalyze/-/wikis/Fa_fit_fcs) can be found in git project of previous FCS-calibrated imaging pipeline developed by Antonio Politi. Only import, correction, and export steps are needed for the WT FA session. Then fill a WT user input in the KNIME workflow of FCSpipelineEMBL_KNIME and execute Python Source node. Use returned offset value for correction steps in further FA sessions for FP and POI.
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@@ -68,7 +68,7 @@ In Python View node of calibration plot users have an opportunity to:
* Reexecute the Python View node with a calibration plot
> Quality Check step could also help to get rid of outliers that can influence the liner parameters of the calibration line.
#### Hints and tips for using FCSpipelineEMBL_KNIME
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@@ -77,7 +77,6 @@ In Python View node of calibration plot users have an opportunity to:
- the execution of concentration maps metanode could take some time. If you don't need to build concentration maps, you can select all nodes except concentration maps metanode when executing pipeline.
# Output files
> All outputs are saved in the main directory.
1.**info.csv**
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@@ -86,6 +85,7 @@ info.csv is generated inside the main user input. This is the main output file w
* the names of directories and files that are used in FCSpipeline
* path to the main directory
* calibration plot parameters and its errors
* intensity baseline
2.**calibration.csv**
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@@ -95,10 +95,18 @@ Here you can find the concentrations of POI in corresponding FCS positions. You
