elliewith
commented
1 week ago Hi, each cell type needs its own column and if the cell is present in that column it should have its proportion if it is not single cell resolved, or "1" for present or "0" for absent if it is single cell resolution. Hope this helps
hello i used stereo seq to analysis sp, want to ask how to create score for focus cell type ,i look for u example nk_cells is
AAACAGTGTTCCTGGG-1-0 0.061412 AAACCGGGTAGGTACC-1-0 0.308839 AAACCGTTCGTCCAGG-1-0 0.349758 AAACCTAAGCAGCCGG-1-0 2.586584 AAACGAAGAACATACC-1_-0 0.472401
but in my data obs: 'nCount_Spatial', 'nFeature_Spatial', 'percent.mito', 'orig.ident', 'x', 'y', 'ClusterNames'
| nCount_Spatial | nFeature_Spatial | percent.mito | orig.ident | x | y | ClusterNames | sample | n_genes_by_counts | log1p_n_genes_by_counts | ... | pct_counts_in_top_50_genes | pct_counts_in_top_100_genes | pct_counts_in_top_200_genes | pct_counts_in_top_500_genes | mt_frac | Control_total_count | Mild Stenosis_total_count | Hot Moderate-Severe Stenosis_total_count | Cold Moderate-Severe Stenosis_total_count | Moderate-Severe Stenosis_total_count -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- 122 | 100 | 5.737705 | sample | 9600 | 11400 | Unknown | ST_C_1 | 100 | 4.615121 | ... | 51.344868 | 99.999993 | 99.999993 | 99.999993 | 0.0 | 454.057556 | 454.057556 | 454.057556 | 454.057556 | 454.057556 483 | 357 | 3.726708 | sample | 9600 | 11500 | Fibroblast | ST_C_1 | 357 | 5.880533 | ... | 17.458218 | 32.293583 | 58.638488 | 99.999995 | 0.0 | 1168.154907 | 1168.154907 | 1168.154907 | 1168.154907 | 1168.154907 220 | 182 | 2.272727 | sample | 9600 | 11600 | Immune cell | ST_C_1 | 182 | 5.209486 | ... | 29.784961 | 56.381568 | 100.000004 | 100.000004 | 0.0 | 721.609741 | 721.609741 | 721.609741 | 721.609741 | 721.609741 168 | 134 | 5.952381 | sample | 9600 | 11700 | Fibroblast | ST_C_1 | 134hope u help hong