contiBAIT

DOI:10.18129/B9.bioc.contiBAIT

This is thedevelopmentversion of contiBAIT; for the stable release version, seecontiBAIT.

Improves Early Build Genome Assemblies using Strand-Seq Data

Bioconductor version: Development (3.16)

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

Installation

To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") # The following initializes usage of Bioc devel BiocManager::install(version='devel') BiocManager::install("contiBAIT")

For older versions of R, please refer to the appropriateBioconductor release.

Documentation

查看文档的版本包age 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,ImmunoOncology,QualityControl,Software,WholeGenome
Version	1.25.0
In Bioconductor since	BioC 3.3 (R-3.3) (6 years)
License	BSD_2_clause + fileLICENSE
Depends	R (>= 3.5.0),BH(>= 1.51.0.3),Rsamtools(>= 1.21)
Imports	data.table, grDevices,clue,cluster,gplots,BiocGenerics(>= 0.31.6),S4Vectors,IRanges,GenomicRanges,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
Links To Me
Build Report

Package Archives

Follow2021年欧洲杯比分预测 instructions to use this package in your R session.

Source Package	contiBAIT_1.25.0.tar.gz
Windows Binary	contiBAIT_1.25.0.zip
macOS 10.13 (High Sierra)	contiBAIT_1.25.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/contiBAIT
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/contiBAIT
Package Short Url	//www.andersvercelli.com/packages/contiBAIT/
Package Downloads Report	Download Stats