reexports: Objects exported from other packages

Description

Description

These objects are imported from other packages. Follow the links below to see their documentation.

AcidBase

URLencode, appendToBody, arrow, as.formula, axisTicks, barcodePattern, basenameSansExt, capture.output, classContains, colorRampPalette, compress, compressExtPattern, data, decompress, dist, dots, download, ecdf, extPattern, fileDepth, fileExt, forceDetach, formalsList, formula, genomeMetadataNames, getS3method, hclust, initDir, lanePattern, majorVersion, median, metadataBlacklist, metadataDenylist, methodFormals, methodFunction, metricsCols, minorVersion, model.matrix, packageName, packageVersion, pasteURL, prcomp, printString, quantile, realpath, relevel, reorder, requireNamespaces, rgb, sanitizeVersion, sessionInfo, shell, showSlotInfo, standardizeCall, unit, untar, updateMessage

AcidCLI

alert, alertDanger, alertInfo, alertSuccess, alertWarning, dl, h1, h2, h3, h4, h5, h6, h7, ol, separator, toInlineString, txt, ul, verbatim

AcidExperiment

SummarizedExperiment, assay, assay<-, assayNames, assayNames<-, assays, assays<-, colData, colData<-, detectLanes, importSampleData, makeSummarizedExperiment, matchInterestingGroups, matchesGene2Symbol, matchesInterestingGroups, microplate, minimalSampleData, rowData, rowData<-, rowRanges, rowRanges<-, sanitizeSampleData, session_info

AcidGenerics

%in%, CharacterList, DataFrame, DataFrameList, FactorList, IRanges, IntegerList, LLint, List, LogicalList, NumericList, Rle, RleList, SimpleList, SplitDataFrameList, aggregate, aggregateCellsToSamples, aggregateCols, aggregateRows, antiJoin, anyDuplicated, append, as.DataFrame, as.SummarizedExperiment, as.data.frame, as.factor, as.list, as.matrix, as.table, as.vector, atomize, autopadZeros, basename, calculateMetrics, camelCase, capitalize, cbind, cell2sample, coerce, coerceToList, colSums, collapseToString, colnames, colnames<-, combine, complete.cases, convertGenesToSymbols, convertSampleIDsToNames, convertSymbolsToGenes, convertTranscriptsToGenes, cor, correlation, counts, counts<-, decode, dims, dirname, do.call, dottedCase, droplevels, duplicated, encode, end, end<-, estimateSizeFactors, eval, expand, expand.grid, export, factorize, filterCells, foldChangeToLogRatio, fullJoin, geneNames, geometricMean, get, getListElement, grep, grepl, gsub, head, headtail, humanize, innerJoin, integerCounts, interestingGroups, interestingGroups<-, intersect, intersectAll, intersectionMatrix, is.unsorted, kebabCase, lapply, leftJoin, logRatioToFoldChange, makeDimnames, makeLabel, makeNames, makeSampleData, makeTitle, makeWords, mapGenesToIDs, mapGenesToRownames, mapGenesToSymbols, mapToDataFrame, mapply, match, matchSampleColumn, mcols, mcols<-, mean, melt, merge, metadata, metadata2, metadata2<-, metadata<-, metrics, metricsPerSample, mget, mutateAll, mutateAt, mutateIf, na.omit, ncol, nonzeroRowsAndCols, nrow, order, organism, organism<-, paste, pmax, pmax.int, pmin, pmin.int, pos, ranges, rank, rankedMatrix, rbind, rbindToDataFrame, relist, removeNA, rep.int, rightJoin, rowMeans, rowSums, rownames, rownames<-, sampleData, sampleData<-, sampleNames, sampleNames<-, sanitizeNA, sanitizePercent, sapply, sd, selectIf, selectSamples, sem, semiJoin, sentenceCase, setdiff, setdiff, showHeader, sizeFactors, sizeFactors<-, snakeCase, sort, split, splitByLevel, start, start<-, stripGeneVersions, stripTranscriptVersions, sub, subset, subsetPerSample, summary, t, table, tail, tapply, topCellsPerSample, tpm, transmuteAt, transmuteIf, trim, union, unique, uniteInterestingGroups, unlist, unlistToDataFrame, unsplit, upperCamelCase, var, which, which.max, which.min, width, width<-, zerosVsDepth

AcidGenomes

Ensembl2Entrez, Entrez2Ensembl, EntrezGeneInfo, Gene2Symbol, HGNC, HGNC2Ensembl, MGI2Ensembl, Tx2Gene, annotable, currentEnsemblGenomeBuild, currentEnsemblVersion, currentFlyBaseVersion, currentGencodeGenomeBuild, currentGencodeVersion, currentRefSeqGenomeBuild, currentRefSeqVersion, currentUCSCGenomeBuild, currentWormBaseVersion, detectOrganism, downloadEnsemblGenome, downloadGencodeGenome, downloadRefSeqGenome, downloadUCSCGenome, emptyRanges, geneSynonyms, importTx2Gene, makeGRangesFromEnsDb, makeGRangesFromEnsembl, makeGRangesFromGFF, makeGene2SymbolFromEnsDb, makeGene2SymbolFromEnsembl, makeGene2SymbolFromGFF, makeProtein2GeneFromEnsembl, makeTx2GeneFromEnsDb, makeTx2GeneFromEnsembl, makeTx2GeneFromFASTA, makeTx2GeneFromGFF, mapEnsemblBuildToUCSC, mapEnsemblReleaseToURL, mapHumanOrthologs, mapUCSCBuildToEnsembl

AcidMarkdown

markdownHeader, markdownLink, markdownList, markdownPlots, markdownTables, mdHeader, mdLink, mdList, mdPlots, mdTables, prepareTemplate

AcidSingleCell

SingleCellExperiment, logcounts, logcounts<-, makeSingleCellExperiment, mapCellsToSamples, normcounts, normcounts<-, reducedDim, reducedDim<-, reducedDimNames, reducedDimNames<-, reducedDims, reducedDims<-

methods

as, formalArgs, is, new, validObject

pipette

GRanges, GRangesList, Matrix, as.data.table, as_tibble, assignAndSaveData, cacheURL, column_to_rownames, getURL, getURLDirList, import, loadData, loadDataAsName, loadRemoteData, localOrRemoteFile, naStrings, rbindlist, rownames_to_column, saveData, seqnames, sparseMatrix, tibble, transmit

stringr

str_detect, str_dup, str_extract, str_extract_all, str_length, str_locate_all, str_match, str_match_all, str_pad, str_replace, str_replace_all, str_replace_na, str_split, str_split_fixed, str_sub, str_subset, str_trunc


acidgenomics/basejump documentation built on May 23, 2021, 7:44 a.m.