To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("contiBAIT")

In most cases, you don't need to download the package archive at all.

contiBAIT

DOI: 10.18129/B9.bioc.contiBAIT

Improves Early Build Genome Assemblies using Strand-Seq Data

Bioconductor version: Release (3.5)

Using strand inheritance data from multiple single cells from the organism whose genome is to be assembled, contiBAIT can cluster unbridged contigs together into putative chromosomes, and order the contigs within those chromosomes.

Author: Kieran O'Neill, Mark Hills, Mike Gottlieb

Maintainer: Kieran O'Neill <koneill at bccrc.ca>

Citation (from within R, enter citation("contiBAIT")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("contiBAIT")

Documentation

To view documentation for the version of this package installed in your system, start R and enter: 

browseVignettes("contiBAIT")
PDF R Script flowBi
PDF Reference Manual
Text NEWS
Text LICENSE

Details

biocViews CellBasedAssays, Genetics, GenomeAssembly, QualityControl, Software, WholeGenome
Version 1.4.0
In Bioconductor since BioC 3.3 (R-3.3) (1.5 years)
License BSD_2_clause + file LICENSE
Depends BH (>= 1.51.0-3), Rsamtools(>= 1.21)
Imports grDevices, clue, cluster, gplots, IRanges, GenomicRanges, S4Vectors, Rcpp, TSP, GenomicFiles, gtools, rtracklayer, BiocParallel, DNAcopy, colorspace, reshape2, ggplot2, methods, exomeCopy, GenomicAlignments, diagram
LinkingTo Rcpp, BH
Suggests BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package contiBAIT_1.4.0.tar.gz
Windows Binary contiBAIT_1.4.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) contiBAIT_1.4.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/contiBAIT
Package Short Url http://bioconductor.org/packages/contiBAIT/
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