recomplexify: Helper function to account for complexes in the resources

In saezlab/liana: LIANA: a LIgand-receptor ANalysis frAmework

Helper function to account for complexes in the resources

Description

Helper function to account for complexes in the resources

Usage

recomplexify(lr_res, columns, add_columns, ...)

Arguments

lr_res	decomplexified* lr_res
columns	columns to account for complexes for (obtained via the 'ScoreSpecifics' class)
...	placeholder One could choose to do any other type of mean: geometric, TriMean, etc.

Details

to be passed before the relevant score_calc function; * decomplexified refers to complexes being broken into subunits which are then treated as seperate entities and re-assembled into complexes (or 'recomplexified') by this function

Note that we call ‘account_missing' function to assign any complex with missing subunits’s relevant columns and expression proportion to 0. This then results in the whole complex being then being filtered (by default) or considered as non-expressed.

Value

complex-accounted lr_res, with both complex and subunit genesymbols

saezlab/liana documentation built on Aug. 10, 2024, 8:14 a.m.