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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
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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")
| R Script | flowBi | |
| 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/ |
| Package Downloads Report | Download Stats |
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