DOI: 10.18129/B9.bioc.Sconify    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see Sconify.

A toolkit for performing KNN-based statistics for flow and mass cytometry data

Bioconductor version: 3.15

This package does k-nearest neighbor based statistics and visualizations with flow and mass cytometery data. This gives tSNE maps"fold change" functionality and provides a data quality metric by assessing manifold overlap between fcs files expected to be the same. Other applications using this package include imputation, marker redundancy, and testing the relative information loss of lower dimension embeddings compared to the original manifold.

Author: Tyler J Burns

Maintainer: Tyler J Burns <burns.tyler at>

Citation (from within R, enter citation("Sconify")):


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HTML R Script Data Quality
HTML R Script Final Post-Processing Steps for Scone
HTML R Script Finding Ideal K
HTML R Script General Scone Analysis
HTML R Script How to process FCS files for downstream use in R
PDF   Reference Manual


biocViews FlowCytometry, ImmunoOncology, MultipleComparison, SingleCell, Software, Visualization
Version 1.16.0
In Bioconductor since BioC 3.7 (R-3.5) (4.5 years)
License Artistic-2.0
Depends R (>= 3.5)
Imports tibble, dplyr, FNN, flowCore, Rtsne, ggplot2, magrittr, utils, stats, readr
Suggests knitr, rmarkdown, testthat
Depends On Me
Imports Me
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