Plot the pre-modeled and modeled profiles for one gene

Description

Plot the pre-modeled and modeled profiles for one gene

A method to see the shapes of the estimated synthesis, degradation and processing rates, pre-mRNA and total mRNA concentrations (solid thin lines) their variances (dashed lines) and the modeled rates and concentrations (ticker solid line) of a single gene.

Usage

plotGene(object, ix, fix.yaxis = FALSE)

## S4 method for signature 'INSPEcT'
plotGene(object, ix, fix.yaxis = FALSE)

Arguments

Value

A list containing total mRNA levels and their confidence interval (levels plus and minus one standard deviation), pre-mRNA lelevs and their confidence intervals, synthsis rates and their confidence intervals, degradation rates and processing rates of the selected gene.

Examples

data('mycerIds10', package='INSPEcT')
plotGene(mycerIds10, 1)

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)

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(INSPEcT)
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: BiocParallel
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/INSPEcT/plotGene.Rd_%03d_medium.png", width=480, height=480)
> ### Name: plotGene
> ### Title: Plot the pre-modeled and modeled profiles for one gene
> ### Aliases: plotGene plotGene,INSPEcT-method
> 
> ### ** Examples
> 
> data('mycerIds10', package='INSPEcT')
> plotGene(mycerIds10, 1)
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>