R Graphical Manual

Last data update: 2014.03.03

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R Release (3.2.3)
CranContrib
BioConductor
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Classification

Results 1 - 10 of 26 found.
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CNVrd2-class (Package: CNVrd2) : Class code{"CNVrd2"

A class of reading BAM files into R and grouping read-count windows into similar segments.

● Data Source: BioConductor
● Keywords: classes
● Alias: CNVrd2-class, countReadInWindow,CNVrd2-method, plotCNVrd2,CNVrd2-method
● 0 images

CNVrd2-package (Package: CNVrd2) :

CNVrd2 uses next-generation sequencing data to measure human gene copy number for multiple samples and indentify SNPs/INDELs which are in linkage disequilibrium with the gene copy number variation.

● Data Source: BioConductor
● Keywords: package
● Alias: CNVrd2-package
● 0 images

calculateLDSNPandCNV (Package: CNVrd2) :

Identifying SNPs/INDELs being in linkage disequilibrium with CNV.

● Data Source: BioConductor
● Keywords:
● Alias: calculateLDSNPandCNV
● 0 images

ccl3l1data (Package: CNVrd2) : Data of CCL3L1 gene (The 1000 Genomes Project)

This data set includes: segmentation results, population information and CCL3L1 CN.

● Data Source: BioConductor
● Keywords: datasets, CCL3L1 CN
● Alias: ccl3l1data
● 0 images

clusteringCNVs-class (Package: CNVrd2) : Class code{"clusteringCNVs"

This class is used to cluster segmentation scores into copy-number groups.

● Data Source: BioConductor
● Keywords: classes
● Alias: clusteringCNVs-class, emnormalCNV,clusteringCNVs-method, groupCNVs,clusteringCNVs-method, objectCluster, searchGroupCNVs,clusteringCNVs-method
● 0 images

countReadInWindow-methods (Package: CNVrd2) : Method code{countReadInWindow

Method to count reads in windows

● Data Source: BioConductor
● Keywords: methods
● Alias: countReadInWindow-methods
● 0 images

countReadInWindow (Package: CNVrd2) :

Counting, transfering and standardizing read counts for all windows of samples. If correctGC = TRUE then all read-count windows will be corrected by the method of Yoon et al. (2009).

● Data Source: BioConductor
● Keywords: methods
● Alias: countReadInWindow
● 0 images

emnormalCNV-methods (Package: CNVrd2) : Method code{emnormalCNV

Implement the Expectation Maximization

● Data Source: BioConductor
● Keywords: methods
● Alias: emnormalCNV-methods
● 0 images

emnormalCNV (Package: CNVrd2) :

This function is used to obtain the maximization likelihood estimation of normal mixture model by using the EM algorithm (Demster et al., 1977).

● Data Source: BioConductor
● Keywords:
● Alias: emnormalCNV
● 2 images

groupBayesianCNVs (Package: CNVrd2) :

Cluster segmentation scores into different groups by using prior information from one population.

● Data Source: BioConductor
● Keywords: methods
● Alias: groupBayesianCNVs
● 0 images