---
title: analycyte workflow overview
---
graph TD
subgraph Softwares
Z([fa:fa-arrow-up-from-bracket FlowJo])
Y([fa:fa-arrow-up-from-bracket OMIQ])
end
OA(fa:fa-arrow-up-from-bracket .rds file)
subgraph Cells
OB(.fcs concatened file)
OC(.csv/.xlsx features files)
MA(.csv/.xlsx metadata)
end
subgraph analycyte
B1[fa:fa-arrow-up-from-bracket Data Import] --> B2[fa:fa-filter Data Processing]
B1 ~~~ B3[fa:fa-table Phantasus Export]
B2 --> C[fa:fa-chart-simple Automated HTML Analysis Reports]
subgraph analycyte.projects
C --> D[QC]
C --> E[DA]
C --> F[DS]
end
analycyte.projects ~~~ B4[Project Export]
end
Softwares --- Cells
Cells --> B1
OA --> B1
OB --- MA
OC --- MA
click OB href "qmd/sec_mod_import_concat.html"
click OC href "qmd/sec_mod_import_feature.html"
click B3 href "qmd/sec_mod_export_ph.html"
click OA href "qmd/sec_mod_import_rds.html"
click Z href "qmd/a1-flowjo.html"
click Y href "qmd/a2-omiq.html"
click D href "qmd/sec_mod_qc.html"
click E href "qmd/sec_mod_da.html"
click F href "qmd/sec_mod_ds.html"
click B4 href "qmd/sec_mod_project_to_export.html"
analycyte: simplify your post-analysis reporting for cytometry
Welcome
analycyte is an shiny application designed to improve post-analysis for cytometry data and user control over this process. This tool simplifies the workflow and facilitate effective decision-making in research and clinical settings. Users can manage their analyses independently, thanks to customized, modular standardized reports.
The tool supports data export from OMIQ and FlowJo. All R objects generated by the application can be easily re-executed to incorporate more recent actions.
analycyte is currently under development
… and so is this book!
For bug reports, support requests, suggestions for improvement, specific documentation needs, or any other inquiries, please contact us.