metacombine: Combine peptide metadata to build protein metadata

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

Combine peptide metadata to build protein metadata

Description

Agregation rules for the cells metadata of peptides. Please refer to the metacell vocabulary in 'metacell.def()'

# Basic agreagtion Agregation of non imputed values (2.X) with quantitative values (1.0, 1.X, 3.0, 3.X) |—————————- Not possible |—————————-

Agregation of different types of missing values (among 2.1, 2.2) |—————————- * Agregation of 2.1 peptides between each other gives a missing value non imputed (2.0) * Agreagtion of 2.2 peptides between each other givesa missing value non imputed (2.0) * Agregation of a mix of 2.1 and 2.2 gives a missing value non imputed (2.0) |—————————-

Agregation of a mix of quantitative values (among 1.0, 1.1, 1.2, 3.0, 3.X) |—————————- * if the type of all the peptides to agregate is 1.0, 1.1 or 1.2, then the final metadata is set the this tag * if the set of metacell to agregate is a mix of 1.0, 1.1 or 1.2, then the final metadata is set to 1.0 * if the set of metacell to agregate is a mix of 3.X and 3.0, then the final metadata is set to 3.0 * if the set of metacell to agregate is a mix of 3.X and 3.0 and other (X.X), then the final metadata is set to 4.0 |—————————-

# Post processing Update metacell with POV/MEC status for the categories 2.0 and 3.0 TODO

Usage

metacombine(met, level)

Arguments

met	xxx
level	xxx

Examples

## Not run: 
ll <- metacell.def('peptide')$node
for (i in 1:length(ll))
test <- lapply(combn(ll, i, simplify = FALSE), 
function(x) tag <- metacombine(x, 'peptide'))

## End(Not run)

samWieczorek/DAPAR documentation built on May 6, 2022, 5:30 p.m.