Exploratory Data Analysis and Normalization for RNA-Seq
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Documentation for package ‘EDASeq’ version 2.43.0
Help Pages
| EDASeq-package | Exploratory Data Analysis and Normalization for RNA-Seq data |
| barplot-method | Methods for Function 'barplot' in Package 'EDASeq' |
| barplot-methods | Methods for Function 'barplot' in Package 'EDASeq' |
| betweenLaneNormalization | Methods for Function 'betweenLaneNormalization' in Package 'EDASeq' |
| betweenLaneNormalization-method | Methods for Function 'betweenLaneNormalization' in Package 'EDASeq' |
| betweenLaneNormalization-methods | Methods for Function 'betweenLaneNormalization' in Package 'EDASeq' |
| biasBoxplot | Methods for Function 'biasBoxplot' in Package 'EDASeq' |
| biasBoxplot-method | Methods for Function 'biasBoxplot' in Package 'EDASeq' |
| biasBoxplot-methods | Methods for Function 'biasBoxplot' in Package 'EDASeq' |
| biasPlot | Methods for Function 'biasPlot' in Package 'EDASeq' |
| biasPlot-method | Methods for Function 'biasPlot' in Package 'EDASeq' |
| biasPlot-methods | Methods for Function 'biasPlot' in Package 'EDASeq' |
| boxplot-method | Methods for Function 'boxplot' in Package 'EDASeq' |
| boxplot-methods | Methods for Function 'boxplot' in Package 'EDASeq' |
| counts-method | "SeqExpressionSet" class for collections of short reads |
| counts<--method | "SeqExpressionSet" class for collections of short reads |
| EDASeq | Exploratory Data Analysis and Normalization for RNA-Seq data |
| exprs-method | "SeqExpressionSet" class for collections of short reads |
| exprs<--method | "SeqExpressionSet" class for collections of short reads |
| getGeneLengthAndGCContent | Get gene length and GC-content |
| initialize-method | "SeqExpressionSet" class for collections of short reads |
| MDPlot | Methods for Function 'MDPlot' in Package 'EDASeq' |
| MDPlot-method | Methods for Function 'MDPlot' in Package 'EDASeq' |
| MDPlot-methods | Methods for Function 'MDPlot' in Package 'EDASeq' |
| meanVarPlot | Methods for Function 'meanVarPlot' in Package 'EDASeq' |
| meanVarPlot-method | Methods for Function 'meanVarPlot' in Package 'EDASeq' |
| meanVarPlot-methods | Methods for Function 'meanVarPlot' in Package 'EDASeq' |
| newSeqExpressionSet | Function to create a new 'SeqExpressionSet' object. |
| normCounts | "SeqExpressionSet" class for collections of short reads |
| normCounts-method | "SeqExpressionSet" class for collections of short reads |
| normCounts<- | "SeqExpressionSet" class for collections of short reads |
| normCounts<--method | "SeqExpressionSet" class for collections of short reads |
| offst | "SeqExpressionSet" class for collections of short reads |
| offst-method | "SeqExpressionSet" class for collections of short reads |
| offst<- | "SeqExpressionSet" class for collections of short reads |
| offst<--method | "SeqExpressionSet" class for collections of short reads |
| plot-method | Methods for Function 'plot' in Package 'EDASeq' |
| plot-methods | Methods for Function 'plot' in Package 'EDASeq' |
| plotNtFrequency | Methods for Function 'plotNtFrequency' in Package 'EDASeq' |
| plotNtFrequency-method | Methods for Function 'plotNtFrequency' in Package 'EDASeq' |
| plotNtFrequency-methods | Methods for Function 'plotNtFrequency' in Package 'EDASeq' |
| plotPCA | Methods for Function 'plotPCA' in Package 'EDASeq' |
| plotPCA-method | Methods for Function 'plotPCA' in Package 'EDASeq' |
| plotPCA-methods | Methods for Function 'plotPCA' in Package 'EDASeq' |
| plotQuality | Methods for Function 'plotQuality' in Package 'EDASeq' |
| plotQuality-method | Methods for Function 'plotQuality' in Package 'EDASeq' |
| plotQuality-methods | Methods for Function 'plotQuality' in Package 'EDASeq' |
| plotRLE | Methods for Function 'plotRLE' in Package 'EDASeq' |
| plotRLE-method | Methods for Function 'plotRLE' in Package 'EDASeq' |
| plotRLE-methods | Methods for Function 'plotRLE' in Package 'EDASeq' |
| SeqExpressionSet-class | "SeqExpressionSet" class for collections of short reads |
| withinLaneNormalization | Methods for Function 'withinLaneNormalization' in Package 'EDASeq' |
| withinLaneNormalization-method | Methods for Function 'withinLaneNormalization' in Package 'EDASeq' |
| withinLaneNormalization-methods | Methods for Function 'withinLaneNormalization' in Package 'EDASeq' |
| yeastGC | GC-content of _S. Cerevisiae_ genes |
| yeastLength | Length of _S. Cerevisiae_ genes |