odseq: Outlier detection in multiple sequence alignments
Version 1.4.0

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.

AuthorJosé Jiménez
Bioconductor views Alignment MultipleSequenceAlignment
Date of publicationNone
MaintainerJosé Jiménez <jose@jimenezluna.com>
LicenseMIT + file LICENSE
Version1.4.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("odseq")

Getting started

Package overview
`odseq` package vignette

Popular man pages

odmix: Gaussian mixture modelling of distances in a multiple...
odseq: Outlier detection in a multiple sequence alignment
odseq_unaligned: Outlier detection provided a distance/similarity matrix of...
seqs: PFAM plus random data.
odseq-package: Outlier detection in multiple sequence alignments
See all...

All man pages Function index File listing

Man pages

odmix: Gaussian mixture modelling of distances in a multiple...
odseq: Outlier detection in a multiple sequence alignment
odseq-package: Outlier detection in multiple sequence alignments
odseq_unaligned: Outlier detection provided a distance/similarity matrix of...
seqs: PFAM plus random data.

Functions

Files

DESCRIPTION
LICENSE
NAMESPACE
R
R/odmix.R
R/odseq.R
R/odseq_unaligned.R
build
build/partial.rdb
build/vignette.rds
data
data/seqs.RData
inst
inst/doc
inst/doc/vignette.R
inst/doc/vignette.Rmd
inst/doc/vignette.pdf
man
man/odmix.Rd
man/odseq-package.Rd
man/odseq.Rd
man/odseq_unaligned.Rd
man/seqs.Rd
vignettes
vignettes/vignette.Rmd
odseq documentation built on May 20, 2017, 10 p.m.

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