# Native routines that are to be used in R via .Call useDynLib(SCArray, c_add, c_get_split, c_rowSums, c_colSums, c_rowProds, c_colProds, c_rowMeans, c_rowMeans_final, c_colMeans, c_rowWMeans, c_rowWMeans_final, c_colWMeans, c_rowVars, c_rowVars_final, c_colVars, c_rowWVars, c_rowWVars_final, c_colWVars, c_rowMeanVar_final, c_colMeanVar, c_rowMins, c_colMins, c_rowMaxs, c_colMaxs, c_rowRanges, c_colRanges, c_row_sum_grp, c_col_sum_grp, c_row_nnzero, c_col_nnzero, c_row_anyNA, c_col_anyNA, c_rowCollapse_init, c_rowCollapse_done, c_rowCollapse, c_colCollapse_init, c_colCollapse, c_sparse_blocksize) # Export the following names exportPattern("^sc*") exportClasses(SCArrayFileClass, SC_GDSArray, SC_GDSMatrix) exportMethods( rowSums, colSums, rowSums2, colSums2, rowProds, colProds, rowLogSumExps, colLogSumExps, rowMeans, colMeans, rowMeans2, colMeans2, rowWeightedMeans, colWeightedMeans, rowVars, colVars, rowSds, colSds, rowWeightedVars, colWeightedVars, rowWeightedSds, colWeightedSds, rowMins, colMins, rowMaxs, colMaxs, rowRanges, colRanges, rowAnyNAs, colAnyNAs, rowCollapse, colCollapse, rowDiffs, colDiffs, rowSdDiffs, colSdDiffs, rowVarDiffs, colVarDiffs, rowAvgsPerColSet, colAvgsPerRowSet, row_nnzero, col_nnzero, colsum, rowsum, scale, pmin2, pmax2, runPCA ) # Import all packages listed as Imports or Depends import(methods) import(gdsfmt) import(SparseArray) import(DelayedArray) import(DelayedMatrixStats) importFrom(utils, head, object.size, packageVersion, read.delim, str, txtProgressBar, setTxtProgressBar) importFrom(Matrix, crossprod, tcrossprod, nnzero, readMM) importFrom(S4Vectors, DataFrame, metadata, new2) importFrom(BiocSingular, bsparam, runPCA) importFrom(BiocParallel, bplapply, bpnworkers, bpstart, bpstop, bpisup, SerialParam) importFrom(SummarizedExperiment, SummarizedExperiment, colData, rowData, assays, "assays<-", assay, "assay<-") importFrom(SingleCellExperiment, SingleCellExperiment, altExp, reducedDim, "reducedDim<-")