Hi developer,I had the cluster result using bin80,but while I was applying function st.pl.spatial_domainsto my data,I set the parameter bin_size=80 and got nothing,then I tried bin_size=1and got a barely satisfying contour image.I followed the steps in the tutorials but found that when scale_factor=1and adata_cellbin.obsm['spatial_bin80']=adata_cellbin.obsm['spatial']//80,nothing showed up.Then I tried scale_factor=0.02andadata_cellbin.obsm['spatial_bin80']=adatacellbin.obsm['spatial']`,I got an image with domain background and cell dots not precisely alligned.How can I alligned my domain(bin80)and cellbin data?(plus I am using Stereo-Seq)
b37889-8dfb-4440-a3db-1cae5dc47b38)
lzy-9865
commented
1 month ago
Hi developer,I had the cluster result using bin80,but while I was applying function
st.pl.spatial_domainsto my data,I set the parameterbin_size=80and got nothing,then I triedbin_size=1and got a barely satisfying contour image.I followed the steps in the tutorials but found that whenscale_factor=1andadata_cellbin.obsm['spatial_bin80']=adata_cellbin.obsm['spatial']//80,nothing showed up.Then I tried scale_factor=0.02andadata_cellbin.obsm['spatial_bin80']=adatacellbin.obsm['spatial']`,I got an image with domain background and cell dots not precisely alligned.How can I alligned my domain(bin80)and cellbin data?(plus I am using Stereo-Seq)   b37889-8dfb-4440-a3db-1cae5dc47b38)