DGEExact-class
(Package: edgeR) :
differential expression of Digital Gene Expression data - class
A list-based S4 class for for storing results of a differential expression analysis for DGE data.
● Data Source:
BioConductor
● Keywords: classes
● Alias: DGEExact-class, show,DGEExact-method
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DGEGLM-class
(Package: edgeR) :
Digital Gene Expression Generalized Linear Model results - class
A list-based S4 class for storing results of a GLM fit to each gene in a DGE dataset.
● Data Source:
BioConductor
● Keywords: classes
● Alias: DGEGLM-class, show,DGEGLM-method
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DGELRT-class
(Package: edgeR) :
Digital Gene Expression Likelihood Ratio Test data and results - class
A list-based S4 class for storing results of a GLM-based differential expression analysis for DGE data.
● Data Source:
BioConductor
● Keywords: classes
● Alias: DGELRT-class, show,DGELRT-method
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DGEList-class
(Package: edgeR) :
Digital Gene Expression data - class
A list-based S4 class for storing read counts and associated information from digital gene expression or sequencing technologies.
● Data Source:
BioConductor
● Keywords: classes
● Alias: DGEList-class
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Creates a DGEList object from a table of counts (rows=features, columns=samples), group indicator for each column, library size (optional) and a table of feature annotation (optional).
● Data Source:
BioConductor
● Keywords:
● Alias: DGEList
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WLEB
(Package: edgeR) :
Calculate Weighted Likelihood Empirical Bayes Estimates
Estimates the parameters which maximize the given log-likelihood matrix using empirical Bayes method.
● Data Source:
BioConductor
● Keywords: algebra
● Alias: WLEB
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adjustedProfileLik
(Package: edgeR) :
Adjusted Profile Likelihood for the Negative Binomial Dispersion Parameter
Compute adjusted profile-likelihoods for estimating the dispersion parameters of genewise negative binomial glms.
● Data Source:
BioConductor
● Keywords:
● Alias: adjustedProfileLik
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as.data.frame
(Package: edgeR) :
Turn a TopTags Object into a Dataframe
Turn a TopTags object into a data.frame.
● Data Source:
BioConductor
● Keywords: array
● Alias: as.data.frame.TopTags
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as.matrix
(Package: edgeR) :
Turn a DGEList Object into a Matrix
Coerce a digital gene expression object into a numeric matrix by extracting the count values.
● Data Source:
BioConductor
● Keywords: array
● Alias: as.matrix.DGEList
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aveLogCPM
(Package: edgeR) :
Average Log Counts Per Million
Compute average log2 counts-per-million for each row of counts.
● Data Source:
BioConductor
● Keywords:
● Alias: aveLogCPM, aveLogCPM.DGEGLM, aveLogCPM.DGEList, aveLogCPM.default
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