Can someone please explain the difference between FindConservedMarkers and FindMarkers.
As per definition:
FindConservedMarkers- Finds markers that are conserved between the groups
- But does that mean that the genes are similarly expressed between groups/conditions or genes are differentially expressed between groups/conditions?
- Also is this supposed to be for all clusters or a single cluster? If all clusters, according to the function we are identifying them for one cluster (ident.1) or max two clusters (ident.2) at a time right? Then, what ? Do I look for similar genes for all the clusters?
FindConservedMarkers(object, ident.1, ident.2 = NULL, grouping.var, assay = "RNA", slot = "data", meta.method = minimump, verbose = TRUE, ...)
FindMarkers - Finds markers (differentially expressed genes) for identity classes
I don't understand what's the significance of this?
FindAllMarkers - Finds markers (differentially expressed genes) for each of the identity classes in a dataset
What is this doing and how is this different from FindConserved Markers?
It would be very helpful if someone can explain this with a biological use cases.
Thanks in advance!