List objects (old man page)

Description

IMPORTANT NOTE - 9/4/2014: This man page is being refactored. Most of the things that used to be documented here have been moved to the man page for List objects located in the S4Vectors package.

Details

The only thing left here is the documentation of the stack method for List objects. In the code snippets below, x is a List object.

stack(x, index.var = "name", value.var = "value"): As with stack on a list, constructs a DataFrame with two columns: one for the unlisted values, the other indicating the name of the element from which each value was obtained. index.var specifies the column name for the index (source name) column and value.var specifies the column name for the values.

See Also

• The List class defined and documented in the S4Vectors package.

Examples

starts <- IntegerList(c(1, 5), c(2, 8))
ends <- IntegerList(c(3, 8), c(5, 9))
rgl <- IRangesList(start=starts, end=ends)
rangeDataFrame <- stack(rgl, "space", "ranges")

Results

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> library(IRanges)
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
    get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
    match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
    rbind, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    colMeans, colSums, expand.grid, rowMeans, rowSums

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/IRanges/List-class-leftovers.Rd_%03d_medium.png", width=480, height=480)
> ### Name: List-class-leftovers
> ### Title: List objects (old man page)
> ### Aliases: stack,List-method
> ### Keywords: methods classes
> 
> ### ** Examples
> 
> starts <- IntegerList(c(1, 5), c(2, 8))
> ends <- IntegerList(c(3, 8), c(5, 9))
> rgl <- IRangesList(start=starts, end=ends)
> rangeDataFrame <- stack(rgl, "space", "ranges")
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>