I have been working on SCENIC to find active TFs.In the output I am getting a very low number of active regulons per cell(avg~7) even though a total of 155 regulons were found to be active throughout the cells. I have doubts on the threshold in have put for binarizing.I have used the default value that the code gives.Is there any way I can retrieve the regulon activity matrix after step 3( without binarizing so that I can try some decision functions for binarising?If it is already available in the /output folder,PLease let me know.!!
Hi!
I have been working on SCENIC to find active TFs.In the output I am getting a very low number of active regulons per cell(avg~7) even though a total of 155 regulons were found to be active throughout the cells. I have doubts on the threshold in have put for binarizing.I have used the default value that the code gives.Is there any way I can retrieve the regulon activity matrix after step 3( without binarizing so that I can try some decision functions for binarising?If it is already available in the /output folder,PLease let me know.!!
Thank you in advance