iss_patcher.knn

iss_patcher.knn(iss, gex, gex_only, obs_to_take=None, cont_obs_to_take=None, nanmean=False, round_counts=True, chunk_size=100000, computation='annoy', neighbours=15, obsm_fraction=False, obsm_pbs=False)

ip.patch() without the normalisation, for when custom data preparation is desired.

All undescribed arguments as in ip.patch().

Input

issAnnData

Low dimensionality data object with processed expression data in .X.

gexAnnData

High dimensionality data object with processed expression data in .X, subset to low dimensionality data object features.

gex_onlyAnnData

High dimensionality data object with raw counts in .X, subset to features absent from the low dimensionality object.