A GRanges object (created by the GGtools package)
with features from a subset of the SNPs on chromosome 20 from 60
HapMap founders in the CEU cohort. Each SNP has an associated data
value indicating its association with the expression of the CPNE1 gene
according to a Cochran-Armitage 1df test. The top 5000 scoring SNPs
were selected for the track.
Usage
data(cpneTrack)
Format
Each feature (row) is a SNP. The association test scores are
accessible via score.
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)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(rtracklayer)
Loading required package: GenomicRanges
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
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
colMeans, colSums, expand.grid, rowMeans, rowSums
Loading required package: IRanges
Loading required package: GenomeInfoDb
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/rtracklayer/cpneTrack.Rd_%03d_medium.png", width=480, height=480)
> ### Name: cpneTrack
> ### Title: CPNE1 SNP track
> ### Aliases: cpneTrack
> ### Keywords: datasets
>
> ### ** Examples
>
> data(cpneTrack)
> plot(start(cpneTrack), score(cpneTrack))
>
>
>
>
>
> dev.off()
null device
1
>