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Rename layer transfer to expression transfer
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src/cellmapper/cellmapper.py

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -383,9 +383,9 @@ def transfer_embeddings(self, obsm_keys: str | list[str], prediction_postfix: st
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logger.info("Embeddings transferred and stored in query.obsm['%s'].", output_key)
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386-
def transfer_layers(self, layer_key: str) -> None:
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def transfer_expression(self, layer_key: str) -> None:
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"""
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Transfer layers (e.g., .X or entries from .layers) from reference dataset to a new imputed query AnnData object.
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Transfer expression values (e.g., .X or entries from .layers) from reference dataset to a new imputed query AnnData object.
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Parameters
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----------
@@ -573,7 +573,7 @@ def fit(
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if obsm_keys is not None:
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self.transfer_embeddings(obsm_keys=obsm_keys, prediction_postfix=prediction_postfix)
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if layer_key is not None:
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self.transfer_layers(layer_key=layer_key)
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self.transfer_expression(layer_key=layer_key)
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if obs_keys is None and obsm_keys is None and layer_key is None:
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logger.warning(
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"Neither ``obs_keys``, ``obsm_keys`` or ``layer_key`` provided. No labels, embeddings or layers were transferred. "

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