seqbias
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.18 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see seqbias.
Estimation of per-position bias in high-throughput sequencing data
Bioconductor version: 3.18
This package implements a model of per-position sequencing bias in high-throughput sequencing data using a simple Bayesian network, the structure and parameters of which are trained on a set of aligned reads and a reference genome sequence.
Author: Daniel Jones <djones3 at fredhutch.org>
Maintainer: Daniel Jones <djones3 at fredhutch.org>
citation("seqbias")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("seqbias")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("seqbias")| Assessing and Adjusting for Technical Bias in High Throughput Sequencing Data | R Script | |
| Reference Manual |
Details
| biocViews | Sequencing, Software |
| Version | 1.50.0 |
| In Bioconductor since | BioC 2.8 (R-2.13) (13 years) |
| License | LGPL-3 |
| Depends | R (>= 3.0.2), GenomicRanges(>= 0.1.0), Biostrings(>= 2.15.0), methods |
| Imports | |
| System Requirements | GNU make |
| URL |
See More
| Suggests | Rsamtools, ggplot2 |
| Linking To | Rhtslib(>= 1.99.1), zlibbioc |
| Enhances | |
| Depends On Me | ReQON |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | seqbias_1.50.0.tar.gz |
| Windows Binary | seqbias_1.50.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/seqbias |
| Source Repository (Developer Access) | git clone [email protected]:packages/seqbias |
| Package Short Url | https://bioconductor.org/packages/seqbias/ |
| Package Downloads Report | Download Stats |