/
NAMESPACE
130 lines (129 loc) · 3.24 KB
/
NAMESPACE
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# Generated by roxygen2: do not edit by hand
S3method(liana_prep,Seurat)
S3method(liana_prep,SingleCellExperiment)
export(FormatConnectome)
export(FormatSCA)
export(FormatiTALK)
export(assign_lr_weights)
export(calculate_gini)
export(call_cellchat)
export(call_connectome)
export(call_italk)
export(call_natmi)
export(call_sca)
export(call_squidpy)
export(cellchat_formatDB)
export(chord_freq)
export(compile_ligrec)
export(conn_formatDB)
export(decomplexify)
export(decompose_tensor)
export(filter_nonabundant_celltypes)
export(generate_homologs)
export(generate_lr_geneset)
export(generate_omni)
export(generate_orthologs)
export(get_abundance_summary)
export(get_c2c_factors)
export(get_connectome)
export(get_curated_omni)
export(get_logfc)
export(get_lr_resources)
export(get_natmi)
export(get_sca)
export(heat_freq)
export(italk_formatDB)
export(join_means)
export(liana_aggregate)
export(liana_bysample)
export(liana_call)
export(liana_defaults)
export(liana_dotplot)
export(liana_heatmap)
export(liana_pipe)
export(liana_prep)
export(liana_tensor_c2c)
export(liana_wrap)
export(mean0)
export(minmax)
export(plot_abundance_summary)
export(plot_c2c_cells)
export(plot_c2c_overview)
export(plot_context_boxplot)
export(plot_context_heat)
export(plot_lr_heatmap)
export(rank_aggregate)
export(rank_method)
export(recomplexify)
export(sca_formatDB)
export(select_resource)
export(show_homologene)
export(show_methods)
export(show_resources)
exportClasses(ScoreSpecifics)
import(SeuratObject)
import(SingleCellExperiment)
import(basilisk)
import(dplyr)
import(ggplot2)
import(purrr)
import(reticulate)
import(stringr)
import(tibble)
import(tidyr)
importFrom(ComplexHeatmap,Heatmap)
importFrom(ComplexHeatmap,HeatmapAnnotation)
importFrom(ComplexHeatmap,anno_barplot)
importFrom(ComplexHeatmap,rowAnnotation)
importFrom(OmnipathR,homologene_download)
importFrom(OmnipathR,homologene_raw)
importFrom(OmnipathR,import_omnipath_intercell)
importFrom(SeuratObject,GetAssayData)
importFrom(SeuratObject,Idents)
importFrom(dplyr,arrange)
importFrom(dplyr,distinct)
importFrom(dplyr,distinct_at)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,group_split)
importFrom(dplyr,if_else)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,mutate_at)
importFrom(dplyr,progress_estimated)
importFrom(dplyr,rename)
importFrom(dplyr,select)
importFrom(grid,gpar)
importFrom(grid,grid.text)
importFrom(grid,unit)
importFrom(magrittr,"%<>%")
importFrom(magrittr,"%>%")
importFrom(purrr,compact)
importFrom(purrr,map)
importFrom(purrr,map2)
importFrom(purrr,pluck)
importFrom(purrr,pmap)
importFrom(purrr,safely)
importFrom(readr,read_csv)
importFrom(reticulate,py_set_seed)
importFrom(rlang,"!!!")
importFrom(rlang,exec)
importFrom(rlang,sym)
importFrom(scran,findMarkers)
importFrom(scuttle,summarizeAssayByGroup)
importFrom(stringr,str_detect)
importFrom(stringr,str_glue)
importFrom(stringr,str_replace)
importFrom(stringr,str_replace_all)
importFrom(stringr,str_split)
importFrom(tibble,as_tibble)
importFrom(tibble,column_to_rownames)
importFrom(tibble,deframe)
importFrom(tibble,enframe)
importFrom(tibble,tibble)
importFrom(tidyr,expand_grid)
importFrom(tidyr,pivot_longer)
importFrom(tidyr,separate)
importFrom(tidyr,unite)
importFrom(tidyr,unnest)
importFrom(tidyselect,everything)