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Bioconductor - odseq (development version)

odseq

This is the development version of odseq; for the stable release version, see odseq.

Outlier detection in multiple sequence alignments

Bioconductor version: Development (3.22)

Performs outlier detection of sequences in a multiple sequence alignment using bootstrap of predefined distance metrics. Outlier sequences can make downstream analyses unreliable or make the alignments less accurate while they are being constructed. This package implements the OD-seq algorithm proposed by Jehl et al (doi 10.1186/s12859-015-0702-1) for aligned sequences and a variant using string kernels for unaligned sequences.

Author: José Jiménez

Maintainer: José Jiménez <jose at jimenezluna.com>

Citation (from within R, enter citation("odseq")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("odseq")

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("odseq")
A quick tutorial to outlier detection in MSAs PDF R Script Reference Manual PDF LICENSE Text Details See More Suggests knitr (>= 1.11) Linking To Enhances Depends On Me Imports Me Suggests Me Links To Me Build Report Build Report Package Archives

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

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