| olink_bridgeselector {OlinkAnalyze} | R Documentation |
Bridge selection function
Description
The bridge selection function will select a number of bridge samples based on the input data. It selects samples with
good detection, which passes QC and cover a good range of the data. If possible, Olink recommends 8-16 bridge samples.
When running the selector, Olink recommends starting at sampleMissingFreq = 0.10 which represents a maximum of 10%
data below LOD per sample. If there are not enough samples output, increase to 20%.
The function accepts NPX Excel files with data < LOD replaced.
Usage
olink_bridgeselector(df, sampleMissingFreq, n)
Arguments
df |
Tibble/data frame in long format such as produced by the Olink Analyze read_NPX function. |
sampleMissingFreq |
The threshold for sample wise missingness. |
n |
Number of bridge samples to be selected. |
Value
A "tibble" with sample IDs and mean NPX for a defined number of bridging samples. Columns include:
SampleID: Sample ID
PercAssaysBelowLOD: Percent of Assays that are below LOD for the sample
MeanNPX: Mean NPX for the sample
Examples
bridge_samples <- olink_bridgeselector(npx_data1, sampleMissingFreq = 0.1, n = 20)