LibraryGroupList: A class for storing library group calls for contigs

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

Description

This class is a list of lists, each primary list element is a chromosome/contig, and contains 2 sub-list elements: a list of 'Mostly Watson" and "Mostly Crick" library names.

Usage

LibraryGroupList(libraryGroups = list(), names = character())

Arguments

libraryGroups	a list of lists, with each primary list element representing a chromosome with two internal list elements; a character vector of mostly watson library names, and a character vector of mostly Crick library names
names	a vector of names of linkage groups

Value

a LibraryGroupList

Examples

lg1 <- LinkageGroupList(list(a=c('library1', 'library2'), b=c('library3')), names=c('chr1_Mostly_Crick', 'chr1_Mostly_Watson'))
lg2 <- LinkageGroupList(list(a=c('library1'), b=c('library6', 'library4')), names=c('chr2_Mostly_Crick', 'chr2_Mostly_Watson'))
libList <- LibraryGroupList(list(lg1, lg2))

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