R Graphical Manual

Last data update: 2014.03.03

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R Release (3.2.3)
CranContrib
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Results 1 - 10 of 10 found.
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bindcadd_snv (Package: gwascat) :

bind CADD scores of Kircher et al. 2014 to a GRanges instance; by default will use HTTP access at UW

● Data Source: BioConductor
● Keywords: models
● Alias: bindcadd_snv
● 0 images

gwascat-package (Package: gwascat) :

representing and modeling data in the NHGRI GWAS catalog, using GRanges and allied infrastructure

● Data Source: BioConductor
● Keywords: package
● Alias: DataFrame, SnpMatrix-class, adj, ebicat37, ebicat38, g17SM, gg17N, gw6.rs_17, gwascat, gwascat-package, gwrngs19, gwrngs38, impute.snps, low17, nodeData, nodes, rules_6.0_1kg_17, si.hs.38, subGraph, ugraph
● 0 images

gwaswloc-class (Package: gwascat) : Class code{"gwaswloc"

A container for GRanges instances representing information in the NHGRI GWAS catalog.

● Data Source: BioConductor
● Keywords: classes
● Alias: [,gwaswloc,ANY,ANY,ANY-method, [,gwaswloc,ANY-method, [,gwaswloc-method, getRsids, getRsids,gwaswloc-method, getTraits, getTraits,gwaswloc-method, gwaswloc-class, show,gwaswloc-method, subsetByChromosome, subsetByChromosome,gwaswloc-method, subsetByTraits, subsetByTraits,gwaswloc-method
● 0 images

gwcex2gviz (Package: gwascat) :

Prepare salient components of GWAS catalog for rendering with Gviz

● Data Source: BioConductor
● Keywords: graphics
● Alias: gwcex2gviz
● 1 images

ldtagr (Package: gwascat) :

expand a list of variants by including those in a VCF with LD exceeding some threshold

● Data Source: BioConductor
● Keywords: models
● Alias: ldtagr
● 0 images

makeCurrentGwascat (Package: gwascat) :

read NHGRI table and construct associated GRanges instance

● Data Source: BioConductor
● Keywords: models
● Alias: makeCurrentGwascat
● 0 images

obo2graphNEL (Package: gwascat) :

convert a typical OBO text file to a graphNEL instance (using Term elements)

● Data Source: BioConductor
● Keywords: models
● Alias: efo.obo.g, node2uri, obo2graphNEL, uri2node
● 0 images

riskyAlleleCount (Package: gwascat) :

given a matrix of subjects x SNP calls, count number of risky alleles for various conditions, relative to NHGRI GWAS catalog

● Data Source: BioConductor
● Keywords: models
● Alias: riskyAlleleCount
● 0 images

topTraits (Package: gwascat) :

operations on GWAS catalog

● Data Source: BioConductor
● Keywords: models
● Alias: chklocs, locs4trait, topTraits
● 0 images

traitsManh (Package: gwascat) :

use ggbio facilities to display GWAS results for selected traits in genomic coordinates

● Data Source: BioConductor
● Keywords: graphics, models
● Alias: traitsManh
● 1 images