merge .allValidPairs of the same celltype cells to reconstructe 3D model

[zcq23]

Hi @lh3 , my 3D model aligning between rep1-3 of the single cell sample "SRR25585058_20Kb_1-3.clean.3dg" is:
[M::align] median deviation between file 0 and file 1: 0.11901128445530633
[M::align] median deviation between file 0 and file 2: 0.10202856767681674
[M::align] median deviation between file 1 and file 2: 0.30208532515466541

but when I compare the cell with another single cell "SRR25585060_20Kb_1-3.clean.3dg"(which as SRR25585058_20Kb_4-6.clean.3dg, they are the same celltype), the RMSD are:
[M::align] median deviation between file 0 and file 3: 24.71208459362338
[M::align] median deviation between file 0 and file 4: 24.71182519219675
[M::align] median deviation between file 0 and file 5: 24.70092361301726

and I have a lot of cells of the same celltype. I wonder whether I can merge them to reconstructe the 3D model to remove the difference between cells, so I can compare their structure differences causing by celltype rather than cell individual.😭 thanks in advance and hope for your reply!!!