norm_internal_cross_product: Internal function normalizing Olink Explore 3k to Olink...

In OlinkAnalyze: Facilitate Analysis of Proteomic Data from Olink

Internal function normalizing Olink Explore 3k to Olink Explore 3072

Description

Internal function normalizing Olink Explore 3k to Olink Explore 3072

Usage

norm_internal_cross_product(
  ref_df,
  ref_samples,
  ref_name,
  ref_cols,
  ref_product,
  not_ref_df,
  not_ref_name,
  not_ref_cols
)

Arguments

ref_df	The reference dataset to be used in normalization (required).
ref_samples	Character vector of sample identifiers to be used for adjustment factor calculation in the reference dataset (required).
ref_name	Project name of the reference dataset (required).
ref_cols	Named list of column names in the reference dataset (required).
ref_product	Name of reference product (required).
not_ref_df	The non-reference dataset to be used in normalization (required).
not_ref_name	Project name of the non-reference dataset (required).
not_ref_cols	Named list of column names in the non-reference dataset (required).

Value

Tibble or ArrowObject with a dataset with the following additional columns:

• OlinkID_E3072: Corresponding assay identifier from Olink Explore 3072.

• Project: Project of origin.

• BridgingRecommendation: Recommendation of whether the assay is bridgeable or not. One of "NotBridgeable", "MedianCentering", or "QuantileSmoothing".

• MedianCenteredNPX: NPX values adjusted based on the median of the pair-wise differences of NPX values between bridge samples.

• QSNormalizedNPX: NPX values adjusted based on the quantile smoothing normalization among bridge samples.

Author(s)

Klev Diamanti

OlinkAnalyze documentation built on April 4, 2025, 3:26 a.m.