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wolski authored Jun 29, 2024
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# Detailed documentation with R code:

Document's explaining how to run an analysis with prolfqua are at github.io [https://fgcz.github.io/prolfqua/index.html](https://fgcz.github.io/prolfqua/index.html).

- [Comparing two Conditions](https://fgcz.github.io/prolfqua/articles/Comparing2Groups.html)
- [QC and protein wise sample size estimation](https://fgcz.github.io/prolfqua/articles/QualityControlAndSampleSizeEstimation.html)
- [Analysing factorial designs](https://fgcz.github.io/prolfqua/articles/Modelling2Factors.html)
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- [QC and sample size Report](https://fgcz.github.io/prolfqua/articles/QCandSampleSize.html)

# Releated projects

- prolfquabenchmark - a package to document the performance of prolfqua, MSstats, msqrob, and proda. See documentation: [https://prolfqua.github.io/prolfquabenchmark/]
- prolfquapp: Generating Dynamic DEA Reports with the prolfqua R Package [https://github.com/prolfqua/prolfquapp](https://github.com/prolfqua/prolfquapp)
- prophosqua - (scripts for the analysis of phospho experiments) [https://github.com/prolfqua/prophosqua](https://github.com/prolfqua/prophosqua)


# How to cite?

Please do reference the [prolfqua article at Journal of Proteome Research](https://pubs.acs.org/doi/full/10.1021)
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