... | ... | @@ -32,6 +32,8 @@ Here we explain how to install and use FCS-calibrated image analysis pipeline. T |
|
|
- Table View (concentrations of POI)
|
|
|
- Two Image Viewers (loaded images with info and concentration maps)
|
|
|
|
|
|
**Important note**: FCSpipelineEMBL_KNIME is an automated software. Only user input and visualization of data steps need the user's supervision.
|
|
|
|
|
|
![wf](uploads/6b22fb7a1eddd463186cde25ee39af80/wf.png)
|
|
|
|
|
|
# Procedure
|
... | ... | @@ -45,11 +47,11 @@ Here we explain how to install and use FCS-calibrated image analysis pipeline. T |
|
|
* Other strategies as described in this [article](https://www.picoquant.com/images/uploads/page/files/7351/appnote_quantfcs.pdf). After you received the value of effective confocal volume you can add it into main user input.
|
|
|
|
|
|
|
|
|
The explanation of every parameter can be founded in a KMIME description menu of the main user input.
|
|
|
The explanation of every parameter can be found in a KMIME description menu of the main user input.
|
|
|
|
|
|
![input1](uploads/a4c9df72fe2acfc0693cc9b274e0fba6/input1.png)
|
|
|
|
|
|
5. Fill a plot parameters input. The explanation of every parameter can be founded in a KMIME description menu of the plot parameters input.
|
|
|
5. Fill a plot parameters input. The explanation of every parameter can be found in a KMIME description menu of the plot parameters input.
|
|
|
|
|
|
![input6](uploads/9722c2ef7708c222886222c7f15ad864/input6.png)
|
|
|
|
... | ... | @@ -79,7 +81,7 @@ In Python View node of calibration plot users have an opportunity to: |
|
|
#### Hints and tips for using FCSpipelineEMBL_KNIME
|
|
|
|
|
|
- you can use several main user inputs for different datasets to not change all parameters every time you process a new dataset
|
|
|
- you can customize the tplot by changing plot settings in Python View metanode.
|
|
|
- you can customize the plot by changing plot settings in Python View metanode.
|
|
|
- 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 the pipeline.
|
|
|
|
|
|
|
... | ... | |