# Generated by roxygen2: do not edit by hand

S3method(print,MASESpatialViews)
export("colTable<-")
export("colTableNames<-")
export("colTables<-")
export("rowLoading<-")
export("rowLoadingNames<-")
export("rowLoadings<-")
export("rowTable<-")
export("rowTableNames<-")
export("rowTables<-")
export(colTable)
export(colTableNames)
export(colTables)
export(linkSpatialMap)
export(readParquet)
export(rowLoading)
export(rowLoadingNames)
export(rowLoadings)
export(rowTable)
export(rowTableNames)
export(rowTables)
export(spatialCoordinateSystems)
export(spatialElementJoin)
export(spatialViews)
export(validateSpatialMap)
export(writeDatapackage)
export(writeParquet)
export(writeStreamingResource)
exportMethods("colPair<-")
exportMethods("colPairs<-")
exportMethods("colTable<-")
exportMethods("colTableNames<-")
exportMethods("colTables<-")
exportMethods("rowLoading<-")
exportMethods("rowLoadingNames<-")
exportMethods("rowLoadings<-")
exportMethods("rowPair<-")
exportMethods("rowPairs<-")
exportMethods("rowTable<-")
exportMethods("rowTableNames<-")
exportMethods("rowTables<-")
exportMethods(annotateWithRegions)
exportMethods(calculateAverage)
exportMethods(calculateCPM)
exportMethods(calculateTPM)
exportMethods(colTable)
exportMethods(colTableNames)
exportMethods(colTables)
exportMethods(correlatePairs)
exportMethods(findMarkers)
exportMethods(geometricSizeFactors)
exportMethods(librarySizeFactors)
exportMethods(modelGeneCV2)
exportMethods(modelGeneVar)
exportMethods(modelGeneVarByPoisson)
exportMethods(normalizeCounts)
exportMethods(numDetectedAcrossFeatures)
exportMethods(pairwiseBinom)
exportMethods(pairwiseTTests)
exportMethods(perCellQCMetrics)
exportMethods(perFeatureQCMetrics)
exportMethods(readGeoParquetForMASE)
exportMethods(readParquetForMASE)
exportMethods(rowLoading)
exportMethods(rowLoadingNames)
exportMethods(rowLoadings)
exportMethods(rowTable)
exportMethods(rowTableNames)
exportMethods(rowTables)
exportMethods(scoreMarkers)
exportMethods(spatialJoin)
exportMethods(spatialMatch)
exportMethods(spatialOverlaps)
exportMethods(subsetByBoundingBox)
exportMethods(subsetByPolygon)
exportMethods(sumCountsAcrossFeatures)
exportMethods(summarizeAssayByGroup)
exportMethods(summaryMarkerStats)
exportMethods(writeParquet)
import(BiocGenerics)
import(methods)
importClassesFrom(DuckDBArray,DuckDBMatrix)
importClassesFrom(DuckDBDataFrame,DuckDBDataFrame)
importClassesFrom(DuckDBDataFrame,DuckDBSelfHits)
importClassesFrom(DuckDBDataFrame,DuckDBTable)
importClassesFrom(DuckDBDataFrame,DuckDBTransposedDataFrame)
importClassesFrom(DuckDBGRanges,DuckDBGRanges)
importClassesFrom(DuckDBGRanges,DuckDBGRangesList)
importClassesFrom(GenomicRanges,GenomicRanges)
importClassesFrom(GenomicRanges,GenomicRangesList)
importClassesFrom(IRanges,CharacterList)
importClassesFrom(MultiAssayExperiment,ExperimentList)
importClassesFrom(MultiAssayExperiment,MultiAssayExperiment)
importClassesFrom(MultiAssaySpatialExperiment,MultiAssaySpatialExperiment)
importClassesFrom(MultiAssaySpatialExperiment,PointsLayerList)
importClassesFrom(MultiAssaySpatialExperiment,RasterLayerList)
importClassesFrom(MultiAssaySpatialExperiment,ShapesLayerList)
importClassesFrom(S4Vectors,DFrame)
importClassesFrom(S4Vectors,DataFrame)
importClassesFrom(S4Vectors,List)
importClassesFrom(S4Vectors,SelfHits)
importClassesFrom(S4Vectors,TransposedDataFrame)
importClassesFrom(SingleCellExperiment,SingleCellExperiment)
importClassesFrom(SummarizedExperiment,Assays)
importClassesFrom(SummarizedExperiment,RangedSummarizedExperiment)
importClassesFrom(SummarizedExperiment,SummarizedExperiment)
importFrom(BiocParallel,
  SerialParam,
  bpstart,
  bpstop
)
importFrom(DBI,
  dbExecute,
  dbGetQuery,
  dbQuoteIdentifier,
  dbWriteTable
)
importFrom(DelayedArray,
  defaultAutoGrid,
  getAutoBPPARAM,
  setAutoBPPARAM,
  sweep,
  type
)
importFrom(DuckDBArray,
  DuckDBArray,
  DuckDBMatrix,
  createDimTables,
  writeCoordArray
)
importFrom(DuckDBDataFrame,
  DuckDBDataFrame,
  DuckDBSelfHits,
  acquireDuckDBConn,
  arrowIntType,
  arrowType,
  clusterSort,
  configureCloud,
  dbconn,
  extractNODES,
  keynames,
  reconcileParquetSchema,
  setupFlatParquetWrite,
  tblconn,
  writeDuckDBTableParquet
)
importFrom(DuckDBGRanges,
  DuckDBGRanges,
  DuckDBGRangesList
)
importFrom(GenomicRanges,
  end,
  seqnames,
  start,
  strand
)
importFrom(IRanges,DataFrameList)
importFrom(MatrixGenerics,
  colMeans,
  colSums,
  rowMeans
)
importFrom(MultiAssayExperiment,
  ExperimentList,
  MultiAssayExperiment,
  experiments,
  sampleMap
)
importFrom(MultiAssaySpatialExperiment,
  PointsLayerList,
  ShapesLayerList,
  annotateWithRegions,
  readGeoParquetForMASE,
  readParquetForMASE,
  spatialJoin,
  spatialMap,
  spatialMatch,
  spatialOverlaps,
  spatialPoints,
  spatialShapes,
  subsetByBoundingBox,
  subsetByPolygon
)
importFrom(S4Vectors,
  "mcols<-",
  "metadata<-",
  DataFrame,
  I,
  SimpleList,
  endoapply,
  getListElement,
  head,
  isSingleNumber,
  isSingleString,
  make_zero_col_DFrame,
  mcols,
  metadata,
  new2,
  nnode,
  tail,
  wmsg
)
importFrom(SingleCellExperiment,
  "colPair<-",
  "colPairs<-",
  "int_colData<-",
  "int_elementMetadata<-",
  "rowPair<-",
  "rowPairs<-",
  SingleCellExperiment,
  altExps,
  colPairNames,
  colPairs,
  int_colData,
  int_elementMetadata,
  mainExpName,
  reducedDimNames,
  reducedDims,
  rowPairNames,
  rowPairs
)
importFrom(SparseArray,COO_SparseArray)
importFrom(SummarizedExperiment,
  "colData<-",
  "rowData<-",
  SummarizedExperiment,
  assays,
  colData,
  rowData,
  rowRanges
)
importFrom(arrow,
  Array,
  as_arrow_table,
  write_dataset,
  write_parquet
)
importFrom(dbplyr,sql_render)
importFrom(dplyr,
  collect,
  filter,
  group_by,
  left_join,
  mutate,
  n,
  sql,
  summarize,
  tbl
)
importFrom(duckdb,
  duckdb_register,
  duckdb_unregister
)
importFrom(jsonlite,
  fromJSON,
  read_json,
  write_json
)
importFrom(metapod,
  averageParallelStats,
  combineParallelPValues
)
importFrom(scran,
  combineBlocks,
  combineMarkers,
  computeMinRank,
  correlatePairs,
  findMarkers,
  fitTrendCV2,
  fitTrendPoisson,
  fitTrendVar,
  modelGeneCV2,
  modelGeneVar,
  modelGeneVarByPoisson,
  pairwiseBinom,
  pairwiseTTests,
  scoreMarkers,
  summaryMarkerStats
)
importFrom(scuttle,
  .bpNotSharedOrUp,
  calculateAverage,
  calculateCPM,
  calculateTPM,
  geometricSizeFactors,
  librarySizeFactors,
  normalizeCounts,
  numDetectedAcrossFeatures,
  perCellQCMetrics,
  perFeatureQCMetrics,
  sumCountsAcrossFeatures,
  summarizeAssayByGroup
)
importFrom(stats,
  median,
  p.adjust,
  pbinom,
  pnorm,
  pt,
  rnbinom,
  rpois,
  setNames
)
importMethodsFrom(scran,correlatePairs)
