polish: Polish final haplotype sequences.

In gschofl/DR2S: Dual redundant reference sequencing

Description

Polish final haplotype sequences.

Usage

polish(x, ...)

Arguments

x	A DR2S object.
...	Additional arguments passed to methods.

Value

A DR2S object with the consensus field populated.

See Also

Other DR2S mapper functions: cache, clear, createDR2SConf, mapFinal, mapInit, mapIter, partitionLongreads, refineAlignment, reportCheckedConsensus, report

Examples

## Not run: 
x <- DR2Smap(
  sample = "ID12300527",
  locus = "DPB1*04:01:01:01",
  datadir = "/path/to/data",
  outdir = "/path/to/output"
  ) %>%
  mapInit() %>%
  partitionLongreads() %>%
  mapIter() %>%
  partitionShortreads() %>%
  mapFinal() %>%
  polish() %>%
  report(blockwidth = 60)

## End(Not run)

gschofl/DR2S documentation built on May 17, 2019, 8:40 a.m.