I need to analyse whole slide image with tissue stained with 4 fluorescent tags. I want to count the number of cells with each tag or a combination of two or more tags. I also want to measure the intensity of each fluorescent tag.
I have developed a pipeline:
- First to identify the nuclie - this will be the cell count.
- Each channel is save separately
- Each channel is identified as a primary object
- Each fluorescent spot is counted and the count and intensity is exported as a spreadsheet.
Is this approach correct?
Thanks in advance
IF_pipeline.cpproj (1.2 MB)
PCE-TDTG-T6_CRE _GFP_TDtomato_CC1_olig2_caudal_009_slice21.tif (2.0 MB)
PCE-TDTG-T6_CRE _GFP_TDtomato_CC1_olig2_rostral_006_slice16.tif (2.0 MB)
PCE-TDTG-T6_CRE _GFP_TDtomato_CC1_olig2_rostral_007_slice9.tif (2.0 MB)