CSV

Parent type	TextFile
Child types	Matrix AnnotationTable SNPMatrix SNPFreq DNARegion
Description	Rectangular CSV file with named columns.
Presentation type	file
Presentation	The file is a tab separated table where the first row is a header row that contains column names. Column separator is \t. Line separator is \n. Note that in components using R to manipulate CSV files the column names must be syntactically valid for R. See R function 'make.names' for detailed description of valid names.
File extension	csv
Example file	plain.csv
Read by	ACGHnorm ACGHsegment AffyNormalization AffyReader AffySNPFetch AgilentImport AgilentReader AlphaShape AnnotateDrugs Annovar Array2Folder Ascat AttributeVisualizer AutoGating BackSPIN BamStats BayesianBiclustering BiclustClusterer BiomartAnnotator BlobDraw BlobFeatures BoxPlot BreakpointVisualizer CGHubDownload CN2GECollection CNACaller CNGEIntegrator CSV2Array CSV2Excel CSV2FASTA CSV2GraphML CSV2IDList CSV2Image CSV2JSON CSV2Latex CSV2SetList CSVCleaner CSVColRename CSVDplyr CSVFilter CSVJoin CSVListJoin CSVSort CSVSplit CSVSplitColumns CSVSummary CSVTransformer CellGrowthAssay CircosPlot ClassifierPerformance ClusterChooser ClusterFiltering ClusterPlot ClusterPlotCombiner ClusterReorder CombinationCounter CombinationMatrix ControlsQCs CreateSQLiteDB CreateSQLiteIDs DEE2DEG DESeqExpr DEan DMML DSRTplots DataOverlap DiffExprSeq EdgeR Ellipse2Mask EnsembleAttributeSelection EntrezAnnotator ExonAnnotator ExonExpression ExonToPeptide ExpExpIntegration ExpandCollapse ExprMethylCGH ExprTable ExprTableReport ExpressionImport ExpressionStats ExpressionSubset ExtensiveCSVJoin ExtractCond FCSReader FSomMetaClustering FastQScreen Fiji FillNA FlowMeans FusionVisualizer GMLVQClassifier GNUPlot GOClustering GOEnrichment GOProbabilityTable GSEAAnalyzer GatingSummary GeneTable GenomeSlider GenomeSpy GenomicVariantAnnotator GetUtrSeq GlobalCorrelation GraphAnnotator HTMLImages HTMLReport HTMLTable HTSeqExprMatrix HTSeqExprNormalize HazardRatio HeatMapReport HistogramPlot HistogramPlot_FrequencyCalculator IDConvert IDDistribution ISABiclust IlluminaAnnotator IlluminaReader ImageGallery InteractionPlot JCSVJoin KaplanMeier KaplanMeierPlot KeywordMatcher KorvasieniAnnotator Labels2Columns LiftOver LimmaStat LineFeatures LinearBinner LocationVariation Logo MaskClusterDraw MaskFilter MatlabEvaluate MatlabOp MeapNormalization MeapQuantification MeapVisualizer MethFilterNorm MicroarrayReader MirMatch MutSig MutationContextPlot NCRNAAnnot NextGene NovelMatureSeq NovelMirnas ObjectFilter OptimalClustering PCA PINA PairCorrelation PairWiseClusterPlot PeakScore PhenographClusterer PlateQCs Plot2D PlotChannels PlotHTML PlotTreeHTML PointDistance PointTracker PopulationTimeline PyClone PythonEvaluate QSNE QUBICClusterer QueryReport REvaluate RNAFold RUBIC RangeMatch RankScore RefSNPAnnotator RegionOverlap RegionReport RiskRatioPlot RowCount RowJoin SBMLTable SNPArrayReader SNPKaplanMeier SNPs3DSearch SPINLONG SQLSelect STARGenome SVDAnalyzer SamSpectral SampleBalancer SampleGroupCreator ScalaEvaluate SegmentPlot SegmentSeeded SelectMethContext SetTransformer SignatureExtractor SignificantCurves SimpleWebPage SmallRNAQC SubsetBam Summarization TPquery TSNE TableQuery TextDraw Transformation Trimmer UtrSeq2Seeds VariantFilter WekaAPriori WekaAttributeSelection WekaClusterer XShiftClusterer iSeq
Written by	ACGHsegment AffySNPFetch AgilentImport AgilentReader AlignStats AlleleCounter AlphaShape AnnotEnsembl AnnotMirbase AnnotateDrugs Annovar Array2CSV Ascat AssemblyQuality AutoGating BICseq BackSPIN Bam2Counts BamStats BiclustClusterer BismarkAlign Blast BlobFeatures CGHubDownload CN2GECollection CNACaller CNGEIntegrator CSVCleaner CSVColRename CSVDplyr CSVFilter CSVListFilter CSVListJoin CSVSort CSVSplit CSVSplitColumns CSVSummary CellGrowthAssay ClassifierPerformance ClickImage ClusterChooser ClusterFiltering ClusterReorder CombinationCounter ControlsQCs ConvertImage CreateSQLiteIDs DEE2DEG DESeqExpr DEan DMML DSRTplots DataOverlap DiffExprSeq EdgeR EnsemblChromosomes EnsembleAttributeSelection EntrezAnnotator ExonAnnotator ExpExpIntegration ExpandCollapse ExprMethylCGH ExprTable ExprTableReport ExpressionImport ExpressionQuantifier ExpressionStats ExpressionSubset ExtensiveCSVJoin ExtractCond FASTA2CSV FCSReader FSomMetaClustering FastQC FastQScreen FijiFeatures FillNA FlowMeans FusionAnalyzer FusionMap GMLVQClassifier GOEnrichment GOProbabilityTable GOSearch GSEAAnalyzer GSVDIntegrator GTFParser GenomeSlider GenomicVariantAnnotator GenotypeComparator GlobalCorrelation GraphMetrics GroupFiles HTSeqCount HTSeqExprMatrix HTSeqExprNormalize HazardRatio HistogramPlot HistogramPlot_FrequencyCalculator ISABiclust IlluminaAnnotator Image2CSV ImageLocalMaxima ImageSummary IntensityCorrelation IntensityFeatures KaplanMeier KaplanMeierPlot KeywordMatcher Labels2Columns LiftOver LimmaStat LineFeatures LinearBinner LocationVariation MACS MMClustering MaskRelate MatlabEvaluate MeapNormalization MethylCall MethylExtract MicroarrayReader MicroplateReader MirMatch ModelicaSimulator MorphologyFeatures MotifMatch MutSig NCRNAAnnot NextGene NovelExprMatrix NovelMatureSeq NucleusGenerator ObjectFilter PCA PCAxisReader PINA PairCorrelation PhenographClusterer PlateQCs PointDistance PointTracker PopulationTimeline PyCloneQC PythonEvaluate QCFasta QCParser QSNE QUBICClusterer QueryReport REvaluate RNAFold RUBIC RangeMatch RankScore RefSNPAnnotator RegionOverlap RowJoin SBMLTable SNPArrayReader SNPKaplanMeier SNPs3DSearch SPIA SPINLONG SPP SQLSelect STAR SVDAnalyzer SamSpectral SampleBalancer ScalaEvaluate SegmentBlob SegmentCRImage SelectDiffMeth SelectMethContext ShapeFitting SigPathway SignatureExtractor SignificantCurves Skeleton2CSV SkeletonFeatures SmallRNAPrep SmallRNAQC Star2Pass StatisticalTest Summarization TPquery TSNE TableQuery Transformation TrimGalore Trimmomatic TumorscapeReader UMIQuantifier UtrSeq2Seeds VCF2AnnotatedCSV VCF2CSV VCMM VariantAnnotator VariantFilter WekaAPriori WekaAttributeSelection WekaClassifier WekaClusterer XML2CSV XShiftClusterer iSeq

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