Package: SerolyzeR 1.4.1

Jakub Grzywaczewski

SerolyzeR: Reading, Quality Control and Preprocessing of MBA (Multiplex Bead Assay) Data

Speeds up the process of loading raw data from MBA (Multiplex Bead Assay) examinations, performs quality control checks, and automatically normalises the data, preparing it for more advanced, downstream tasks. The main objective of the package is to create a simple environment for a user, who does not necessarily have experience with R language. The package is developed within the project 'PvSTATEM', which is an international project aiming for malaria elimination.

Authors:Jakub Grzywaczewski [aut, cre], Tymoteusz Kwiecinski [aut], Mateusz Nizwantowski [aut], Przemyslaw Biecek [ths], Nuno Sepulveda [ths]

SerolyzeR_1.4.1.tar.gz
SerolyzeR_1.4.1.zip(r-4.7)SerolyzeR_1.4.1.zip(r-4.6)SerolyzeR_1.4.1.zip(r-4.5)
SerolyzeR_1.4.1.tgz(r-4.6-any)SerolyzeR_1.4.1.tgz(r-4.5-any)
SerolyzeR_1.4.1.tar.gz(r-4.7-any)SerolyzeR_1.4.1.tar.gz(r-4.6-any)
SerolyzeR_1.4.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
SerolyzeR/json (API)

# Install 'SerolyzeR' in R:
install.packages('SerolyzeR', repos = c('https://mini-pw.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/mini-pw/serolyzer/issues

Pkgdown/docs site:https://mini-pw.github.io

On CRAN:

Conda:

6.51 score 9 stars 10 scripts 219 downloads 22 exports 50 dependencies

Last updated from:08362de9db. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK246
source / vignettesOK293
linux-release-x86_64OK240
macos-release-arm64OK204
macos-oldrel-arm64OK193
windows-develOK255
windows-releaseOK267
windows-oldrelOK228
wasm-releaseOK135

Exports:create_standard_curve_model_analytegenerate_levey_jennings_reportgenerate_plate_reportget_nmfiis_valid_data_typeis_valid_sample_typemerge_plate_outputsPlateBuilderplot_countsplot_layoutplot_levey_jenningsplot_mfi_for_analyteplot_standard_curve_analyteplot_standard_curve_analyte_with_modelplot_standard_curve_stackedprocess_dirprocess_fileprocess_plateread_layout_dataread_luminex_dataread_xponent_formattranslate_sample_names_to_sample_types

Dependencies:base64enccellrangerclicpp11crayondplyrfarverfsgenericsggplot2ggrepelgluegtablehmsisobandjsonlitelabelinglifecyclelubridatemagrittrnplrpatchworkpillarpkgconfigpngprettyunitsprogressR.methodsS3R.ooR.utilsR6RColorBrewerRcppreadxlrematchrlangS7scalesstringistringrsvglitesystemfontstextshapingtibbletidyselecttimechangeutf8vctrsviridisLitewithr

Basic SerolyzeR functionalities

Tymoteusz Kwieciński

Rendered fromexample_script.Rmdusingknitr::rmarkdownon May 20 2026.

Last update: 2026-01-17
Started: 2024-07-08

Multiplate SerolyzeR functionalities

Tymoteusz Kwieciński

Rendered frommultiplate_tutorial.Rmdusingknitr::rmarkdownon May 20 2026.

Last update: 2026-01-17
Started: 2025-03-16

Our datasets

Tymoteusz Kwieciński

Rendered fromour_datasets.Rmdusingknitr::rmarkdownon May 20 2026.

Last update: 2026-01-17
Started: 2024-07-17

Raw data parsers

Jakub Grzywaczewski

Rendered fromparsers.Rmdusingknitr::rmarkdownon May 20 2026.

Last update: 2026-01-17
Started: 2025-01-03

SerolyzeR HTML reports

Mateusz Nizwantowski

Rendered fromour_reports.Rmdusingknitr::rmarkdownon May 20 2026.

Last update: 2025-07-16
Started: 2025-01-03

SerolyzeR plots

Mateusz Nizwantowski

Rendered fromour_plots.Rmdusingknitr::rmarkdownon May 20 2026.

Last update: 2025-07-09
Started: 2024-08-27

Readme and manuals

Help Manual

Help pageTopics
Create a standard curve model for a certain analytecreate_standard_curve_model_analyte
Generate a Levey-Jennings Report for Multiple Plates.generate_levey_jennings_report
Generate a report for a plate.generate_plate_report
Calculate Normalised MFI (nMFI) Values for a Plateget_nmfi
Detect and handle the high dose hook effecthandle_high_dose_hook
Check validity of given data typeis_valid_data_type
Check validity of given sample typeis_valid_sample_type
Merge Normalised Data from Multiple Platesmerge_plate_outputs
Logistic regression model for the standard curveModel
Plate ObjectPlate
PlateBuilderPlateBuilder
Plot counts in a 96-well plateplot_counts
Plot layout of a 96-well plateplot_layout
Plot Levey-Jennings chartplot_levey_jennings
Plot MFI value distribution for a given analyteplot_mfi_for_analyte
Standard curvesplot_standard_curve_analyte
Plot standard curve of a certain analyte with fitted modelplot_standard_curve_analyte_with_model
Standard curve stacked plot for levey-jennings reportplot_standard_curve_stacked
Predict the RAU values from the MFI valuespredict.Model
Process a Directory of Luminex Data Filesprocess_dir
Process a File to Generate Normalised Data and Reportsprocess_file
Process Plate Data and Save Normalised Outputprocess_plate
Read the BIOPLEX format dataread_bioplex_format
Read the Intelliflex format dataread_intelliflex_format
Read layout data from a fileread_layout_data
Read Luminex Dataread_luminex_data
Read the xPONENT format dataread_xponent_format
Translate sample names to sample typestranslate_sample_names_to_sample_types