Hello,
Thanks for sharing you tool. I am in the middle of my single cell data cell annotation. But I am not sure how you did the cell labeling here https://github.com/dchary/ucdeconvolve/blob/main/docs/notebooks/single_cell_example.ipynb:
label = "celltype_ucdbase_propagated"
adata.obs[label] = 'unknown'
adata.obs.loc[adata.obs.leiden.isin(("1",)), label] = "monocyte"
adata.obs.loc[adata.obs.leiden.isin(("4",)), label] = "platelet"
adata.obs.loc[adata.obs.leiden.isin(("3",)), label] = "b cell"
adata.obs.loc[adata.obs.leiden.isin(("0",)), label] = "cd4 t cell"
adata.obs.loc[adata.obs.leiden.isin(("2",)), label] = "natural killer cell"
adata.obs.loc[adata.obs.leiden.isin(("5",)), label] = "cd8 t cell"
Would you please guide me to know how you did this step, so that I can do labeling on my own data. Thanks!
Hello,
Thanks for sharing you tool. I am in the middle of my single cell data cell annotation. But I am not sure how you did the cell labeling here https://github.com/dchary/ucdeconvolve/blob/main/docs/notebooks/single_cell_example.ipynb:
label = "celltype_ucdbase_propagated"
adata.obs[label] = 'unknown'
adata.obs.loc[adata.obs.leiden.isin(("1",)), label] = "monocyte"
adata.obs.loc[adata.obs.leiden.isin(("4",)), label] = "platelet"
adata.obs.loc[adata.obs.leiden.isin(("3",)), label] = "b cell"
adata.obs.loc[adata.obs.leiden.isin(("0",)), label] = "cd4 t cell"
adata.obs.loc[adata.obs.leiden.isin(("2",)), label] = "natural killer cell"
adata.obs.loc[adata.obs.leiden.isin(("5",)), label] = "cd8 t cell"
Would you please guide me to know how you did this step, so that I can do labeling on my own data. Thanks!