Comments (2)
Hello Antonio,
yes I think it's a reasonable approach. Those double positives for NK and T cell signatures could be doublets, or perhaps NKT cells? you could for instance check whether this subset expresses more genes on average than either the NK and T subsets – that may point towards doublets rather than to a distinct subtype?
Cheers,
-m
from scgate.
Thank you Massimo for your quick reply.
I'll follow your advice.
Thank you for your helpful recommendations and again for developing and supporting such a useful software.
António
from scgate.
Related Issues (20)
- new function to evaluate multiple models (list) with one command HOT 1
- new function to obtain a multi-class variable from a set of scGate models' pure/impure output HOT 3
- for merged datasets, allow for independent gating HOT 1
- Ucell scores for _additional_signatures_ not exported in multi-model mode [dev]
- plot_UCell_scores() fails unless scGate() is run with save.levels=T
- Use of pos.thr neg.thr HOT 2
- scGate & performance.metrics HOT 3
- nn.idx with pre-calculated dimensionality reductions HOT 5
- Possible issue related to future / parallelism? HOT 1
- combining model_DBs HOT 6
- Add in custom scGATE db function
- Update models for blood cells HOT 1
- Create model for macrophages HOT 1
- kNN smoothing parameters HOT 1
- scGate as a multi-class classifier HOT 1
- Prepare for upcoming Seurat v5 release
- Discrepancy in genes included in block list between Human and Mouse
- scGate parallelization
- incomplete final line found by readTableHeader on HSPC_scGate_Model HOT 2
- Use of Custom Markers for scGate HOT 2
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