AnchorCorrection | R Documentation |
Run all methods for anchor correction
AnchorCorrection(
ref_mat,
query_mat,
rna_mat,
cite_index,
num.cc = NULL,
k.anchor = 20,
k.filter = 100,
k.score = 80,
k.weight = 100,
verbose = FALSE
)
ref_mat |
a (cell x feature) protein expression matrix |
query_mat |
a (cell x feature) protein expression matrix to be corrected |
rna_mat |
a (cell x feature) embedding of the mRNA expression matrix from CITE-seq |
cite_index |
which matrix (1 or 2) is the CITE-seq protein expression matrix |
num.cc |
number of canonical vectors to calculate. Defaults to number of proteins - 1 |
k.anchor |
number of nn used to find anchors via mutual nearest neighbors |
k.filter |
number of nn in original feature space to use for filtering |
k.score |
number of nn to use in shared nearest neighbor scoring |
k.weight |
number of nn in original query feature space to make correction vectors |
verbose |
print status at each step |
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