R Graphical Manual

Last data update: 2014.03.03

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R Release (3.2.3)
CranContrib
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Classification

Results 1 - 10 of 13 found.
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Distance-to-median (Package: scran) : Compute the distance-to-median statistic

Compute the distance-to-median statistic for the CV2 residuals of all genes

● Data Source: BioConductor
● Keywords: variance
● Alias: DM
● 0 images

Spike-in normalization (Package: scran) : Normalization with spike-in counts

Compute size factors based on the coverage of spike-in transcripts.

● Data Source: BioConductor
● Keywords: normalization
● Alias: computeSpikeFactors, computeSpikeFactors,SCESet-method
● 0 images

Deconvolution Methods (Package: scran) : Normalization by deconvolution

Methods to normalize single-cell RNA-seq data by deconvolving size factors from cell pools.

● Data Source: BioConductor
● Keywords: normalization
● Alias: computeSumFactors, computeSumFactors,SCESet-method, computeSumFactors,matrix-method
● 0 images

convertTo (Package: scran) : Convert to other classes

Convert a SCESet object into other classes for entry into other analysis pipelines.

● Data Source: BioConductor
● Keywords:
● Alias: convertTo, convertTo,SCESet-method
● 0 images

correlatePairs (Package: scran) : Test for significant correlations

Identify pairs of genes that are significantly correlated based on a modified Spearman's rho.

● Data Source: BioConductor
● Keywords:
● Alias: correlateNull, correlatePairs, correlatePairs,SCESet-method, correlatePairs,matrix-method
● 1 images

cyclone (Package: scran) : Cell cycle phase classification

Classify single cells into their cell cycle phases based on gene expression data.

● Data Source: BioConductor
● Keywords: clustering
● Alias: cyclone, cyclone,SCESet-method, cyclone,matrix-method
● 1 images

decomposeVar (Package: scran) : Decompose the gene-level variance

Decompose the gene-specific variance into biological and technical components for single-cell RNA-seq data.

● Data Source: BioConductor
● Keywords: variance
● Alias: decomposeVar, decomposeVar,SCESet,list-method, decomposeVar,matrix,list-method
● 2 images

Normalized Expression (Package: scran) : Compute normalized expression values

Compute (log-)expression values from read counts, using pre-calculated size factors for normalization.

● Data Source: BioConductor
● Keywords:
● Alias: normalize, normalize,SCESet-method
● 0 images

Quick clustering (Package: scran) : Quick clustering of cells

Cluster similar cells based on rank correlations in their gene expression profiles.

● Data Source: BioConductor
● Keywords: normalization
● Alias: quickCluster, quickCluster,SCESet-method, quickCluster,matrix-method
● 0 images

sandbag (Package: scran) : Cell cycle phase training

Use gene expression data to train a classifier for cell cycle phase.

● Data Source: BioConductor
● Keywords: clustering
● Alias: sandbag, sandbag,SCESet-method, sandbag,matrix-method
● 0 images