pair: Pair up two vectors
In HelloRanges: Introduce *Ranges to bedtools users

Description Usage Arguments Details Value Author(s) See Also

Creates a Pairs from two vectors, optionally via a left outer join.

pair(x, y, ...)
## S4 method for signature 'Vector,Vector'
pair(x, y, by = findMatches(x, y), all.x = FALSE,
                   NA.VALUE = y[NA])

`x`	The “first” vector.
`y`	The “second” vector.
`by`	The `Hits-class` object that matches up the elements into pairs.
`all.x`	If `TRUE`, keep every member of `x`, even if it has no hits. The “second” component is filled with the `NA.VALUE`.
`NA.VALUE`	The value to fill holes in `y` when `all.x` is `TRUE`.
`...`	Arguments for methods.

This might move to S4Vectors at some point. It is distinct from simple Pairs construction, because it performs transformations like a left outer join. More options might be added in the future.

For GRanges and other ranged objects, pair adds “.” to the seqlevels, because that is the seqname of the missing GRanges.

A Pairs object

Michael Lawrence

Pairs-class, created by this function. bedtools_intersect, whose loj argument motivated the creation of this function.

HelloRanges documentation built on Nov. 8, 2020, 7:05 p.m.