RStudio

RStudio is an integrated development environment (IDE) for R. It includes a console, syntax-highlighting editor that supports direct code execution, as well as tools for plotting, history, debugging and workspace management.

Publish to RPubs

Getting Started with RPubs

RStudio lets you harness the power of R Markdown to create documents that weave together your writing and the output of your R code. And now, with RPubs, you can publish those documents on the web with the click of a button!

Prerequisites

You’ll need R itself, RStudio (v0.96.230 or later), and the knitr package (v0.5 or later).

Instructions

In RStudio, create a new R Markdown document by choosing File | New | R Markdown.
Click the Knit HTML button in the doc toolbar to preview your document.
In the preview window, click the Publish button.

Results：

Convergence testing

library(lattice)
library(lme4)
library(blme)
library(reshape2)
library(ggplot2); theme_set(theme_bw())
library(gridExtra)  ## for grid.arrange
library(bbmle) ## for slice2D; requires *latest* r-forge version (r121)
source("allFit.R")

Load data:

1	dList <- load("data.RData")

Spaghetti plot: don’t see much pattern other than (1) general increasing trend; (2) quantized response values (table(dth$Estimate) or unique(dth$Estimate) also show this); (3) skewed residuals

1	sort(unique(dth$Estimate))

1 2	## [1] 0.0 0.5 1.0 1.5 2.0 2.5 3.0 4.0 5.0 6.0 7.0 7.5 8.0 10.0 ## [15] 12.0 15.0 17.0 20.0 25.0 30.0 35.0 40.0 50.0 60.0 70.0 75.0 90.0

1
2
3

(p0 <- ggplot(dth,aes(Actual,Estimate))+geom_point()+
    geom_line(aes(group=factor(pid)))+
    stat_summary(fun.y=mean,geom="line",colour="red",lwd=2))