We know that the main competitor methods are a couple of single cell QC measurements/standards. Is there any scenarios that we envision spatially-aware QC metrics possible could advance? What would be some good examples to demonstrate the advantages of applying spatially-aware QC?
Optimally, we would hope that spaQC would outperform all the competitors based on some metrics in various case studies. But it is acceptable (for publishing purpose) that we could that spaQC outperforms each competing methods in individual case studies. That would be the evdience to support a claim like spaQC would be the most comprehensive QC method.
In addition, if we can think of/find cases that different QC metric would have substaintial impact on the downstream analysis, this would be be extremely solid evidence.
Methods of comparison
Method 1, e.g. fixed thresholding
Not data driven
Method 2, e.g. Median Absolute Deviation
Would remove rare/extreme cell population/spatial domain
(optional) Method 3
Case study:
Case 1 - Utility 1
Case 2 - Utility 2
data-driven QC instead of heuristic driven QC
Don't have to use arbitrary threshold for all samples, or manually select for each sample.
...
This a brainstorming post. I would love to see how you would think about this. Or just keep this at the back of your head when explore different methods.
We know that the main competitor methods are a couple of single cell QC measurements/standards. Is there any scenarios that we envision spatially-aware QC metrics possible could advance? What would be some good examples to demonstrate the advantages of applying spatially-aware QC?
Optimally, we would hope that spaQC would outperform all the competitors based on some metrics in various case studies. But it is acceptable (for publishing purpose) that we could that spaQC outperforms each competing methods in individual case studies. That would be the evdience to support a claim like spaQC would be the most comprehensive QC method.
In addition, if we can think of/find cases that different QC metric would have substaintial impact on the downstream analysis, this would be be extremely solid evidence.
Methods of comparison
Case study:
Case 1 - Utility 1
Case 2 - Utility 2
This a brainstorming post. I would love to see how you would think about this. Or just keep this at the back of your head when explore different methods.