qMetacell-filter: Search lines which respects request on one or more...

In samWieczorek/Dapar2: Tools for the Differential Analysis of Proteins Abundance with R

Search lines which respects request on one or more conditions.

Description

This function looks for the lines that respect the request in either all conditions or at least one condition.

Usage

qMetacellFilteringScope()

SymFilteringOperators()

qMetacellWholeMatrix(object, cmd, pattern, percent, th, operator)

qMetacellWholeLine(object, cmd, pattern)

qMetacellOnConditions(object, cmd, mode, pattern, conds, percent, operator, th)

Arguments

object	xxx
cmd	Available values are:
pattern	ss
percent	xxx
th	The theshold to apply
operator	String for operator to use. List of operators is available with SymFilteringOperators().
mode	xxx
conds	xxx

Value

NA

NA

NA

NA

NA

NA

Examples

data(ft, package='DaparToolshed')
obj <- ft[[1]]
level <- typeOfData(ft, 1)
pattern <- "missing"
mask <- match.qMetacell(
    metadata = qMetacell(obj),
    pattern = pattern,
    level = level
)
percent <- FALSE
th <- 3
op <- ">="
ind <- qMetacellWholeMatrix(mask, op, percent, th)

data(ft, package='DaparToolshed')
obj <- ft[[1]]
mask <- match.qMetacell(
    metadata = qMetacell(obj),
    pattern = "missing POV",
    level = typeOfData(obj)
)
ind <- qMetacellWholeLine(mask)

#' data(ft, package='DaparToolshed')
obj <- ft[[1]]
mask <- match.qMetacell(
    metadata = qMetacell(obj),
    pattern = "missing",
    level = typeOfData(obj)
)
type <- "AllCond"
conds <- design.qf(ft)$Condition
op <- ">="
th <- 2
percent <- FALSE
ind <- qMetacellOnConditions(mask, type, conds, percent, op, th)

qMetacellFilteringScope()

SymFilteringOperators()

NA

samWieczorek/Dapar2 documentation built on Oct. 12, 2023, 9:54 a.m.