Workshop: Intermediate R Software Development

This is a series of meetings to enhance our understanding of R as a programming language, and to connect with other people interested in R software development. It is open to members of the Roswell Park and SUNY at Buffalo communities. It is suitable for people who already know R, and are eager to develop a deeper understanding of the language and 'best practices' when tackling larger projects.

There are six sessions. Participants are expected to attend all sessions. All sessions are 4-6 pm in the Gaylord Cary Meeting Room, Research Studies Center, Roswell Park.

Applications CLOSED.

The first meeting is Wednesday, 5 October, at 4-6 pm in the Gaylord Cary Meeting Room, Research Studies Center, Roswell Park.

Preparation

1. Please bring a laptop with wifi capabilities. Its a 2-hour session so a charged battery should be ok; I'm not sure what the power supply situation will be.

Schedule (Tentative)

Wednesday, 5 October

• Working with packages and github.

• Please install R version 3.3.1, RStudio, and git.

• Please also install devtools.

    install.packages("devtools")
  

Friday, 7 October

• Classical, tidy, and rich approaches to data representation and analysis

• For session 2, please install dplyr, data.table, reshape2 ggplot2 and SummarizedExperiment

    install.packages(
        c("dplyr", "data.table", "reshape2", "ggplot2"),
        repos="https://cran.r-project.org"
    )
    source("https://bioconductor.org/biocLite.R")
    biocLite("SummarizedExperiment")
  

• Please also download the following plain-text files: ALL-expression.csv, ALL-phenoData.csv

Wednesday, 12 October

• Understanding classes and methods

Friday, 14 October

• Unit tests and other programming best practices

Wednesday, 19 October

• For session 5, please install microbenchmark, memoise, and optionally inline

    install.packages(
        c("microbenchmark", "memoise", "inline")
        repos="https://cran.r-project.org"
    )
  

• Writing efficient code

Friday, 21 October

• For this session, please install rmarkdown and shiny.

• Reports, shiny applications, and interactive communication