update documentation

SydneyBioX · Oct 12, 2023 · 224dc90 · 224dc90
1 parent ade78a2
commit 224dc90
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Showing 23 changed files with 144 additions and 184 deletions.
diff --git a/NAMESPACE b/NAMESPACE
@@ -1,8 +1,6 @@
 # Generated by roxygen2: do not edit by hand
 
 export(get_num_cell_per_spot)
-export(makeSeurat)
-export(process_data)
 export(remove_mito_ribo)
 export(run_CCI)
 export(run_L_function)
@@ -26,7 +24,6 @@ export(scFeatures)
 import(DelayedArray)
 import(EnsDb.Hsapiens.v79)
 import(EnsDb.Mmusculus.v79)
-import(Seurat)
 import(SingleCellSignalR)
 import(dplyr)
 import(rmarkdown)
@@ -41,8 +38,6 @@ importFrom(DelayedMatrixStats,rowMeans2)
 importFrom(DelayedMatrixStats,rowVars)
 importFrom(GSVA,gsva)
 importFrom(MatrixGenerics,colSums2)
-importFrom(SpatialExperiment,spatialCoords)
-importFrom(SummarizedExperiment,colData)
 importFrom(ape,Moran.I)
 importFrom(cli,cli_abort)
 importFrom(cli,cli_warn)

diff --git a/man/get_num_cell_per_spot.Rd b/man/get_num_cell_per_spot.Rd
diff --git a/man/makeSeurat.Rd b/man/makeSeurat.Rd
diff --git a/man/process_data.Rd b/man/process_data.Rd
diff --git a/man/remove_mito_ribo.Rd b/man/remove_mito_ribo.Rd
diff --git a/man/run_CCI.Rd b/man/run_CCI.Rd
diff --git a/man/run_L_function.Rd b/man/run_L_function.Rd
diff --git a/man/run_Morans_I.Rd b/man/run_Morans_I.Rd
diff --git a/man/run_celltype_interaction.Rd b/man/run_celltype_interaction.Rd
diff --git a/man/run_gene_cor.Rd b/man/run_gene_cor.Rd
diff --git a/man/run_gene_cor_celltype.Rd b/man/run_gene_cor_celltype.Rd
diff --git a/man/run_gene_mean.Rd b/man/run_gene_mean.Rd
diff --git a/man/run_gene_mean_celltype.Rd b/man/run_gene_mean_celltype.Rd