prepare_fetch_GRanges {seqsetvis} | R Documentation

## prepares GRanges for windowed fetching.

### Description

Deprecated and renamed as prepare_fetch_GRanges_width

### Usage

    prepare_fetch_GRanges(
      qgr,
      win_size,
      min_quantile = 0.75,
      target_size = NULL,
      skip_centerFix = FALSE
    )

### Arguments

`qgr` | GRanges to prepare
`win_size` | numeric window size for fetch
`min_quantile` | numeric [0,1], lowest possible quantile value. Only relevant if target_size is not specified.
`target_size` | numeric final width of qgr if known. Default of NULL leads to quantile based determination of target_size.
`skip_centerFix` | boolean, if FALSE (default) all regions will be resized GenomicRanges::resize(x, w, fix = "center") to a uniform size based on min_quantile to a width divisible by win_size.

### Details

output GRanges parallels input with consistent width evenly divisible by win_size. Has warning if GRanges needed resizing, otherwise no warning and input GRanges is returned unchanged.

### Value

GRanges, either identical to qgr or with suitable consistent width applied.

### Examples

    #use prepare_fetch_GRanges_width instead:
    qgr = prepare_fetch_GRanges_width(CTCF_in_10a_overlaps_gr, win_size = 50)
    #no warning if qgr is already valid for windowed fetching
    prepare_fetch_GRanges_width(qgr, win_size = 50)

[Package seqsetvis version 1.12.0 Index]