v2.0.0: Merge pull request #31 from tcrombie/dev/WF

New Features

• Add a new suite of ObjectFlag (OF) and WellFlag (WF) functions.
• Add many new check and view functions to help diagnose flagging issues.
• Add the delta and regEff functions to calculate control deltas and regression bleach effects.

Breaking Changes

• Older code using the readXpress function may have to update the way the data are passed to modelSelection(). The new readXpress function returns a list with elements namedraw_data and design. Pass <out>$raw_data to modelSelection().

Improvements

• All new documentation for functions with corrected spelling and proper implementation of pkgdown.

v1.0.0

This is the initial release of easyXpress

• This version contains four additional functions not described in Nyaanga et al. 2021. These functions help organize .TIFs for cellprofiler-nf and create diagnostic thumbnail images.
  • tidyImages - This function organizes the .TIF files exported from an imager platform by creating a raw_images subdirectory in the project directory, moving all the .TIF files into it, and removing non-TIF files and folders if desired.
  • wellThumbs - This function makes .png thumbnails from .TIF files in the raw_images directory. The thumbnails are saved to the raw_image_thumbs subdirectory in the project directory.
  • plateThumbs - This function arrays the thumbnails in the raw_image_thumbs subdirectory into a single image for each 96-well plate. The plate thumbnails are saved to the raw_plate_thumbs subdirectory in the project directory.
  • tidyProject - This function executes the three pervious functions with a single call.