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fix link to crossproduct bridging vignette
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Diff for: OlinkAnalyze/vignettes/Vignett.Rmd

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@@ -198,7 +198,7 @@ The function handles four different types of normalization:
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- **Bridging normalization**: One of the dataframes is adjusted to another using overlapping samples (bridge samples). The overlapping samples should have the same IDs between dataframes. Adjustment is made using the median of the paired differences between the bridge samples. For more information on bridging, consult the [Introduction to bridging Olink® NPX datasets tutorial](bridging_introduction.html).
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- **Subset normalization**: A subset of samples is used to normalize two dataframes, one of which is used as a reference_project. Adjustment is made using the differences of medians between the sample subsets from the two dataframes. Subset normalization is useful if no bridge samples were included and one can assume that the distribution of the two datasets is very similar.
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- **Reference median normalization**: Works only on one dataframe. This is effectively subset normalization, but using difference of medians to pre-recorded median values. df1, overlapping_samples_df1 and reference_medians need to be specified.
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- **Cross-product bridging**: Similar to bridging normalization but bridging across products, for example bridging Explore 3072 data to Explore HT data. Overlapping samples are run on both products and used to determine which assays are bridgeable and what method should be used to bridge each assay. For more information on the between-product bridging methodology, consult the [Bridging Olink^®^ Explore 3072 to Olink^®^ Explore HT Tutorial](bridging_E3072toEHT.html).
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- **Cross-product bridging**: Similar to bridging normalization but bridging across products, for example bridging Explore 3072 data to Explore HT data. Overlapping samples are run on both products and used to determine which assays are bridgeable and what method should be used to bridge each assay. For more information on the between-product bridging methodology, consult the [Bridging across NGS-based Olink^®^ products Tutorial](bridging_crossproduct.html).
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## Integrating Explore NPX LOD (olink_lod)
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## Visualizing bridgeability criteria for between-product normalization (olink_bridgeability_plot)
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The olink_bridgeability_plot function generates a series of plots on a per-assay basis for a data frame generated from between-product bridging. The coloration of the figure headers indicate whether that assay has been defined as bridgeable or not bridgeable. The correlation plot, violin plot, and bar chart figures illustrate the three criteria for determining whether an assay is bridgeable. For assays determined to be bridgeable, the ECDF curve and corresponding KS statistic are used to determine which normalization approach (median centering or quantile smoothing) is most suitable for between-product normalization. For more information on the between-product bridging methodology and bridgeability criteria, consult the [Bridging Olink^®^ Explore 3072 to Olink^®^ Explore HT Tutorial](bridging_E3072toEHT.html).
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The olink_bridgeability_plot function generates a series of plots on a per-assay basis for a data frame generated from between-product bridging. The coloration of the figure headers indicate whether that assay has been defined as bridgeable or not bridgeable. The correlation plot, violin plot, and bar chart figures illustrate the three criteria for determining whether an assay is bridgeable. For assays determined to be bridgeable, the ECDF curve and corresponding KS statistic are used to determine which normalization approach (median centering or quantile smoothing) is most suitable for between-product normalization. For more information on the between-product bridging methodology and bridgeability criteria, consult the [Bridging across NGS-based Olink^®^ products Tutorial](bridging_crossproduct.Rmd).
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### Function arguments
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