Olink R package: A collection of functions to facilitate analysis of proteomic data from Olink. The goal of this package is to help users extract biological insights from proteomic data run on the Olink platform.
Problem: In the normalization of data from Olink Explore HT and Olink Explore 3072 we need to identify assays that can be bridged using median adjustment normalization (bridge normalization) and quantile quantile normalization (quantile smoothing), or non-bridgeable at all.
Solution: Write a function that performs all necessary checks to determine if an assay is bridgeable or not.
Key Features:
Use components developed to optimize olink_normalization as whole.
Develop features to identify outliers that can be used by other functions
Integrate functionality in olink_normalization
Checklist
[X] Make sure you are requesting to pull a feature/bugfix branch (right side). This should not be main or develop.
[X] Make sure you are make a pull request against either main or develop (left side). (Requesting to main should be reserved for bugfixes and new releases)
[X] Add or update unit tests (if applicable)
[X] Check your code with any unit tests (Run devtools::check() locally)
[X] Add neccessary documentation (if applicable)
Type of changes
What type of changes does your code introduce?
Put an x in the boxes that apply
[ ] Bugfix (non-breaking change which fixes an issue) (link the issue on the right)
[X] New feature (non-breaking change which adds functionality)
[ ] Breaking change (fix or feature that would cause existing functionality to not work as expected)
[ ] Code style update (formatting, renaming)
[X] Documentation Update
[ ] Other (explain)
Further comments
This is standardizing the code from #438 to utilize features developed to make olink_normalization more versatile.
Title: Assess if an assay is bridgeable
Problem: In the normalization of data from Olink Explore HT and Olink Explore 3072 we need to identify assays that can be bridged using median adjustment normalization (bridge normalization) and quantile quantile normalization (quantile smoothing), or non-bridgeable at all.
Solution: Write a function that performs all necessary checks to determine if an assay is bridgeable or not.
Key Features:
Checklist
Type of changes
What type of changes does your code introduce? Put an
x
in the boxes that applyFurther comments
This is standardizing the code from #438 to utilize features developed to make olink_normalization more versatile.