map_save_ram {onemap}

Perform map using background objects with only selected markers. It saves ram memory during the procedure. It is useful if dealing with many markers in total data set.

Description

Perform map using background objects with only selected markers. It saves ram memory during the procedure. It is useful if dealing with many markers in total data set.

Usage

map_save_ram(
  input.seq,
  tol = 1e-04,
  verbose = FALSE,
  rm_unlinked = FALSE,
  phase_cores = 1,
  size = NULL,
  overlap = NULL,
  parallelization.type = "PSOCK",
  max.gap = FALSE
)

Arguments

input.seq

object of class sequence

tol

tolerance for the C routine, i.e., the value used to evaluate convergence.

verbose

If TRUE, print tracing information.

rm_unlinked

When some pair of markers do not follow the linkage criteria, if TRUE one of the markers is removed and returns a vector with remaining marker numbers (useful for mds_onemap and map_avoid_unlinked functions).

phase_cores

The number of parallel processes to use when estimating the phase of a marker. (Should be no more than 4)

size

The center size around which an optimum is to be searched

overlap

The desired overlap between batches

parallelization.type

one of the supported cluster types. This should be either PSOCK (default) or FORK.

max.gap

the marker will be removed if it have gaps higher than this defined threshold in both sides