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brianhie / scanorama

Panoramic stitching of single cell data
http://scanorama.csail.mit.edu
MIT License
253 stars 46 forks source link

alignment scores outpout #160

Open prubbens opened 1 week ago

prubbens commented 1 week ago

When running integrate() or correct(), a table with values is returned, which I think are the alignment scores between datasets.

Is this correct?

If so, I think it would be useful to add this to the output (as it took me some time figuring it out), e.g.: 

  print('Alignment scores between datasets: ')
  print(alignments)

Of course, if the latter corresponds to the table containing the scores.

brianhie commented 1 week ago

That is correct -- the alignment score is based on the percentage of aligned cells. I can certainly consider this as a potential improvement!