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Update README.md
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njbernstein authored Jun 30, 2021
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Expand Up @@ -73,11 +73,11 @@ model_json example:

Outputs:
* `is_doublet.npy` np boolean array, true if a cell is a doublet, differs from `preds.npy` if `-e expected_number_of_doublets` parameter was used
* `vae.pt` scVI weights for vae
* `classifier.pt` scVI weights for classifier
* `vae` scVI directory for vae
* `classifier.pt` scVI directory for classifier
* `latent.npy` latent embedding for each cell
* `preds.npy` doublet predictions
* `softmax_scores.npy` updated softmax of doublet scores (see paper)
* `softmax_scores.npy` updated softmax of doublet scores (see paper), same as `no_update_softmax_scores.npy` now
* `no_update_softmax_scores.npy` raw softmax of doublet scores

* `logit_scores.npy` logit of doublet scores
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