modifyExistingList: Override existing list entries
In Heatplus: Heatmaps with row and/or column covariates and colored clusters

Description Usage Arguments Details Value See Also Examples

Override existing list entries and extract arguments that are specified as named lists

1
2
3

modifyExistingList(x, val)

extractArg(arglist, deflist)

`x`	a named list, the target for replacing with entries with the same name from `val`
`val`	a named list that serves as template for filling in values in `x`
`arglist`	a named list; these are the specified arguments that override the defaults.
`deflist`	a named list whose entries are all possible slots (with default values) that can be filled.

modifyExistingList is a general function that recursively overwrites named items in x with the value of items of val with the same name. Items in val that have no name, or do not correspond to an item in x with the same name, are ignored.

extractArg is a specific helper function for setting default values for the annHeatmap2-family of functions, where arguments are given as a list with two named items, Row and Col. Each of these items is again a named list of actual parameters. At the same time, all items with other names than Row and Col at the top level are assumed to be shared items with the same value for both sub-lists. extractArg uses modifyExistingList to overwrite the default values specified in deflist with the actual values specified in arglist, see Examples.

modifyExistingList returns x, with values replaced from val where names match. extractArg returns a list with items Row and Col fully specified according to both deflist and arglist.

annHeatmap2

    ## Replace items with matching names recursively
    x   = list(a=1, b=2, c=list(a=31, b=32), 135)
    val = list(a=2, c=list(b=1114), d=92)
    modifyExistingList(x, val)
    
    ## Same defaults for rows/columns, no arguments specified
    defs = list(a="A", b="B", c="C")
    extractArg(NULL, defs)

    ## Shared and non-shared defaults
    defs = list(common.1=134, common.2=72, Row=list(row.only=14), Col=list(col.only=134))
    args = list(common.1 = -1, Row=list(row.only=94, common.2=-15))
    extractArg(args, defs)