silhouetteRankTest | R Documentation |
Multi parameter aggregator version of silhouetteRank
silhouetteRankTest(
gobject,
expression_values = c("normalized", "scaled", "custom"),
subset_genes = NULL,
overwrite_input_bin = TRUE,
rbp_ps = c(0.95, 0.99),
examine_tops = c(0.005, 0.01, 0.05, 0.1, 0.3),
matrix_type = "dissim",
num_core = 4,
parallel_path = "/usr/bin",
output = NULL,
query_sizes = 10L,
verbose = FALSE,
return_gobject = F
)
gobject |
giotto object |
expression_values |
expression values to use |
subset_genes |
only run on this subset of genes |
overwrite_input_bin |
overwrite input bin |
rbp_ps |
fractional binarization thresholds |
examine_tops |
top fractions to evaluate with silhouette |
matrix_type |
type of matrix |
num_core |
number of cores to use |
parallel_path |
path to GNU parallel function |
output |
output directory |
query_sizes |
size of query |
verbose |
be verbose |
data.table with spatial scores
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