assignPrelim {CATALYST} | R Documentation |
Assigns a preliminary barcode ID to each event.
assignPrelim(x, y, ...) ## S4 method for signature 'flowFrame,data.frame' assignPrelim(x, y, cofactor = 10, verbose = TRUE) ## S4 method for signature 'flowFrame,vector' assignPrelim(x, y, cofactor = 10, verbose = TRUE) ## S4 method for signature 'character,data.frame' assignPrelim(x, y, cofactor = 10, verbose = TRUE) ## S4 method for signature 'character,vector' assignPrelim(x, y, cofactor = 10, verbose = TRUE)
x |
a |
y |
the debarcoding scheme. A binary matrix with sample names as row names and
numeric masses as column names OR a vector of numeric masses corresponding
to barcode channels. When the latter is supplied, |
... |
optional arguments. |
cofactor |
numeric. Cofactor used for asinh transformation. |
verbose |
logical. Should extra information on progress be reported? |
Returns a dbFrame
containing measurement intensities,
the debarcoding key, a numeric verctor of barcode IDs and separations
between positive and negative barcode populations, and barcode intensities
normalized by population.
Helena Lucia Crowell crowellh@student.ethz.ch
Zunder, E.R. et al. (2015). Palladium-based mass tag cell barcoding with a doublet-filtering scheme and single-cell deconvolution algorithm. Nature Protocols 10, 316-333.
data(sample_ff, sample_key) assignPrelim(x = sample_ff, y = sample_key)