# Generated by roxygen2: do not edit by hand

export(aggregateNeighbors)
export(binAcrossPixels)
export(buildSpatialGraph)
export(countInteractions)
export(detectCommunity)
export(detectSpatialContext)
export(distToCells)
export(filterPixels)
export(filterSpatialContext)
export(findBorderCells)
export(patchDetection)
export(patchSize)
export(plotInteractions)
export(plotSpatial)
export(plotSpatialContext)
export(plotSpotHeatmap)
export(readImagefromTXT)
export(readSCEfromTIFF)
export(readSCEfromTXT)
export(read_cpout)
export(read_steinbock)
export(show_cpout_features)
export(testInteractions)
import(SingleCellExperiment)
import(ggraph)
importFrom(BiocNeighbors,
  KmknnParam,
  findKNN,
  findNeighbors
)
importFrom(BiocParallel,
  SerialParam,
  bplapply
)
importFrom(DT,datatable)
importFrom(EBImage,
  Image,
  readImage
)
importFrom(MatrixGenerics,
  rowMaxs,
  rowMeans,
  rowMedians,
  rowMins
)
importFrom(RTriangle,
  pslg,
  triangulate
)
importFrom(S4Vectors,
  DataFrame,
  SelfHits,
  isRedundantHit,
  mcols,
  metadata
)
importFrom(SingleCellExperiment,
  SingleCellExperiment,
  colData,
  colPair
)
importFrom(SpatialExperiment,
  "spatialCoords<-",
  SpatialExperiment,
  spatialCoords,
  spatialCoordsNames
)
importFrom(SummarizedExperiment,
  "assay<-",
  "colData<-",
  "metadata<-",
  "rowData<-",
  assay,
  assayNames,
  colData
)
importFrom(abind,abind)
importFrom(concaveman,concaveman)
importFrom(cytomapper,
  "channelNames<-",
  CytoImageList,
  channelNames
)
importFrom(data.table,
  ":=",
  CJ,
  as.data.table,
  data.table,
  dcast,
  dcast.data.table,
  melt,
  melt.data.table,
  setnames,
  setorder
)
importFrom(distances,
  distance_columns,
  distances
)
importFrom(dplyr,
  across,
  all_of,
  as_tibble,
  contains,
  count,
  everything,
  filter,
  group_by,
  group_by_all,
  group_by_at,
  join_by,
  left_join,
  mutate,
  n,
  n_distinct,
  nest_by,
  pull,
  select,
  summarise,
  summarize,
  sym
)
importFrom(ggplot2,
  aes,
  coord_fixed,
  element_blank,
  element_text,
  ggtitle,
  guide_colorbar,
  guide_legend,
  guides,
  labs,
  scale_color_manual,
  scale_shape_manual,
  scale_size_manual,
  scale_x_reverse,
  scale_y_reverse,
  theme
)
importFrom(ggraph,
  geom_edge_link,
  geom_node_label,
  geom_node_point,
  ggraph
)
importFrom(grDevices,chull)
importFrom(grid,
  arrow,
  unit
)
importFrom(igraph,
  as_directed,
  as_edgelist,
  as_undirected,
  cluster_louvain,
  components,
  edge_attr,
  graph_from_adj_list,
  graph_from_data_frame,
  graph_from_edgelist,
  layout_with_sugiyama,
  membership,
  simplify,
  sizes,
  vertex_attr
)
importFrom(magrittr,"%>%")
importFrom(methods,
  as,
  is
)
importFrom(pheatmap,pheatmap)
importFrom(readr,
  cols,
  read_delim
)
importFrom(rlang,.data)
importFrom(scrapper,
  aggregateAcrossCells,
  aggregateAcrossCells.se
)
importFrom(sf,
  st_area,
  st_buffer,
  st_cast,
  st_distance,
  st_intersects,
  st_multipoint,
  st_polygon,
  st_sfc
)
importFrom(stats,
  dist,
  median,
  na.omit,
  sd,
  var
)
importFrom(stringr,
  str_count,
  str_extract,
  str_extract_all,
  str_replace,
  str_split
)
importFrom(tidygraph,tbl_graph)
importFrom(tidyselect,all_of)
importFrom(utils,
  capture.output,
  getFromNamespace,
  globalVariables,
  read.csv
)
importFrom(viridis,
  scale_color_viridis,
  viridis
)
importFrom(vroom,vroom)
