a4Assemble

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Introduction

This package stems from a need to run the a4 assembly pipeline on Bacillus subtilis data for the Stanley Wall lab at Dundee University. To make this simpler it seemed a good idea to make an R package to wrap the command. I am attempting to do this outside RStudio using the devtools package from the command line, and Hadley Wickham’s Book as a reference

# change to the development directory
setwd(paste0("/Users/pschofield/git_hub/",projName))
# create a test directory
devtools::use_testthat()
# create the documentation from the roxygen comments in the R sources
devtools::document()
# load the package for testing
devtools::load_all()
# run the test scripts stored in the tests subdirectory
devtools::test()
# install the packages so it can be used outwith the source directory
devtools::install(reload=T)
# get the help for one of the functions
devtools::use_data_raw()
devtools::use_vignette("a4Assemble")

February 5, 2015

Moved the code base to a private GitHub repository like the SpikeNorm one