gwdf_2012_02_02: internal data frame for NHGRI GWAS catalog

Description Usage Format Note Source Examples

Description

convenience container for imported table from NHGRI GWAS catalog

Usage

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data("gwdf_2014_09_08")

Format

A data frame with 17832 observations on the following 34 variables.

Date Added to Catalog

a character vector

PUBMEDID

a numeric vector

First Author

a character vector

Date

a character vector

Journal

a character vector

Link

a character vector

Study

a character vector

Disease/Trait

a character vector

Initial Sample Size

a character vector

Replication Sample Size

a character vector

Region

a character vector

Chr_id

a character vector

Chr_pos

a character vector

Reported Gene(s)

a character vector

Mapped_gene

a character vector

Upstream_gene_id

a character vector

Downstream_gene_id

a character vector

Snp_gene_ids

a character vector

Upstream_gene_distance

a character vector

Downstream_gene_distance

a character vector

Strongest SNP-Risk Allele

a character vector

SNPs

a character vector

Merged

a character vector

Snp_id_current

a character vector

Context

a character vector

Intergenic

a character vector

Risk Allele Frequency

a character vector

p-Value

a character vector

Pvalue_mlog

a character vector

p-Value (text)

a character vector

OR or beta

a character vector

95% CI (text)

a character vector

Platform [SNPs passing QC]

a character vector

CNV

a character vector

Note

In versions prior to 1.9.6, The .onAttach function specifies which data frame is transformed to GRanges. This is now managed manually.

Source

http://www.genome.gov/gwastudies

Examples

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## Not run: 
data(gwdf_2014_09_08)
# try gwascat:::gwdf2GRanges on this data.frame

## End(Not run)

Bioconductor-mirror/gwascat documentation built on June 23, 2017, 5:22 p.m.