PSCBS: Analysis of Parent-Specific DNA Copy Numbers

Parallel processing

The package supports segmentation of the chromosomes in parallel (asynchronously) via futures by adding the following

future::plan("multiprocess")

to the beginning of the PSCBS script. Everything else will work the same. To reset to non-parallel processing, use future::plan("sequential").

To configure this automatically whenever the package is loaded, see future vignette 'A Future for R: Controlling Default Future Strategy'.

Installation

R package PSCBS is available on CRAN and can be installed in R as:

install.packages('PSCBS')

Pre-release version

To install the pre-release version that is available in branch develop, use:

source('http://callr.org/install#HenrikBengtsson/PSCBS@develop')

This will install the package from source.

Contributions

This Git repository uses the Git Flow branching model (the git flow extension is useful for this). The develop branch contains the latest contributions and other code that will appear in the next release, and the master branch contains the code of the latest release, which is exactly what is currently on CRAN.

Contributing to this package is easy. Just send a pull request. When you send your PR, make sure develop is the destination branch on the PSCBS repository. Your PR should pass R CMD check --as-cran, which will also be checked by Travis CI and AppVeyor CI when the PR is submitted.

Software status

Resource:	CRAN	Travis CI	Appveyor
Platforms:	Multiple	Linux & macOS	Windows
R CMD check
Test coverage