Gene position data frame

Description

A data frame specifying the genomic locations of each gene/probe needs to be prepared with the following columns: gene name, chromosome number, start location (in base pairs) and the location (in base pairs).

Usage

data(probe.liver)

Format

A data frame with 4427 observations with the following columns: gene name, chromosome number, start location (in base pairs) and the location (in base pairs).

Source

This F2 cross data set containing genotypic and phenotypic information for 60 mice was obtained from the lab of Alan Attie Lab at the University of Wisconsin-Madison. These data are also available at GEO (accession number GSE3330). Only the 5000 most variable expression traits out of 45,265 transcripts from the liver were used for the current example.

Examples

data(probe.liver)

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'contributors()' for more information and
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Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
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> library(iBMQ)
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
    get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
    match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
    rbind, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: ggplot2
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/iBMQ/probe.liver.Rd_%03d_medium.png", width=480, height=480)
> ### Name: probe.liver
> ### Title: Gene position data frame
> ### Aliases: probe.liver
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(probe.liver)
> 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>