Changelog • profilePro

profilePro 0.8.2

Add Bioconductor dependencies to the remote field in DESCRIPTION to ensure that these can be installed when installing the package using pak or renv.
Fix for plotChromatogram() when the specified sample classes using the cls argument is not a character vector.
Fix for plotChromatogram() with the now returned MChromatograms class object from xcms::chromatogram().

Temporarily use jasenfinch/BiocParallel.FutureParam until the pull request for the package installation error due to the update of BiocParallel to version 1.30.0.
Removed readr from the Imports field the package DESCRIPTION.

Added missing import of MSnbase::as.MSnExp.OnDiskMSnExp().
Re-export plan() from the future package.
The parallel processing back-end for xcms processing is now specified using plan() from future package. This is enabled by the BiocParallel.FutureParam package.
Removed the nCores argument from profileParameters().
Removed patchwork as a dependency.

Removed parallel arguments from erah processing routine as these now support the use of the future package.
Fixed LC-MS processing routine when on a single ionisation mode is present.
Fixed plotChromatogram() for single ionisation mode data.
Added unit tests for GC-MS processing using xcms.
Improved plotting aesthetics of plotChromatogram() and plotTIC().

Added a NEWS.md file to track changes to the package.
Added pkgdown site available at https://jasenfinch.github.io/profilePro/
The magrittr::%>% now re-exported.
Improved console output for profilePro::profileProcess().
Added full examples for profilePro::profileProcess().
The nCores argument can now be supplied profilePro::profileProcess() to select the number of cores to use for parallel processing.
Added profilePro::availableTechniques() to list available processing techniques in the package.
MetaboProfile S4 class now inherits from ProfileParameters S4 class.
Added get and set methods for the MetaboProfile S4 class.
Added get and set methods for the ProfileParamters S4 class.
Added validators for MetaboProfile S4 class to ensure that sample information contains the correct fields and that the file names in the specified paths match those in the sample information.
Added unit tests