orderContigsGreedy: Function to order contigs within a single linkage group using...

In contiBAIT: Improves Early Build Genome Assemblies using Strand-Seq Data

Description

Function to order contigs within a single linkage group using a greedy algorithms Attempt to order contigs within

Usage

orderContigsGreedy(linkageGroupReadTable, randomAttempts = 75,
  nProcesses = 1, verbose = TRUE)

Arguments

linkageGroupReadTable	dataframe of strand calls (product of combineZeroDists or preprocessStrandTable)
randomAttempts	number of times to repeat the greedy algortihm with a random restart
nProcesses	number of processes to attempt ordering in parallel
verbose	whether to print verbose messages

Value

list of two members: 1) contig names in order, 2) the original data.frame entered into function correctly ordered

contiBAIT documentation built on Nov. 8, 2020, 5:49 p.m.