consensus_LG_assignment {polymapR}

Consensus LG assignment

Description

Assign markers to an LG based on consensus between two parents.

Usage

consensus_LG_assignment(
  P1_assigned,
  P2_assigned,
  LG_number,
  ploidy,
  consensus_file = NULL,
  log = NULL
)

Arguments

P1_assigned

A marker assignment file of the first parent. Should contain the number of linkages per LG per marker.

P2_assigned

A marker assignment file of the second parent. Should be the same markertype as first parent and contain the number of linkages per LG per marker.

LG_number

Number of linkage groups (chromosomes).

ploidy

Ploidy level of plant species.

consensus_file

Filename of consensus output. No output is written if NULL.

log

Character string specifying the log filename to which standard output should be written. If NULL log is send to stdout.

Value

Returns a list containing the following components:

P1_assigned

A (modified) marker assignment matrix of the first parent.

P2_assigned

A (modified) marker assignment matrix of the second parent.

Examples

data("P1_SxS_Assigned", "P2_SxS_Assigned_2")
SxS_Assigned_list <- consensus_LG_assignment(P1_SxS_Assigned,P2_SxS_Assigned_2,5,4)