MAssively Parallel Flow cytometry Xplorer (MAPFX): A Toolbox for Analysing Data from the Massively-Parallel Cytometry Experiments

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Documentation for package ‘MAPFX’ version 1.0.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

bkc_bkb	Background correction for the backbone markers
bkc_pe	Background correction for the well-specific markers (PE)
cluster.analysis	Cluster analysis with normalised backbone measurements and the complete dataset
cluster.analysis.bkbOnly	Cluster analysis with normalised backbone measurements
fcs_to_rds	Converting FCS files to RDS files
fcs_to_rds_bkb	Converting FCS files to RDS files (for the case without exploratory markers)
imputation_bkb.predictors	Imputing the unmeasured well-specific markers with regression models
initM	Initial biological clusters
MapfxFFC	Normalising data from the Fluorescence Flow Cytometry (FFC) Experiments with mapfx.norm
MapfxMPC	MAssively Parallel Flow cytometry Xplorer (MAPFX)
mkImputeMT	Making the input for imputation
ord.fcs.raw.meta.df.out_ffc	Metadata of the example MPC data
ord.fcs.raw.meta.df.out_mpc	Metadata of the example FFC data
ord.fcs.raw.mt_ffc	Subset of the single-cell murine lung data at steady state from an MPC experiment
ord.fcs.raw.mt_mpc	Subset of the sorted CD4+ and CD8+ T cells from mice splenocytes from an FFC experiment
rmBatchEffect	Removing batch effect from the data (FFC)
rmWellEffect	Removing well effect from the data