DOI: 10.18129/B9.bioc.metagene    

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

A package to produce metagene plots

Bioconductor version: Development (3.7)

This package produces metagene plots to compare the behavior of DNA-interacting proteins at selected groups of genes/features. Bam files are used to increase the resolution. Multiple combination of group of bam files and/or group of genomic regions can be compared in a single analysis. Bootstraping analysis is used to compare the groups and locate regions with statistically different enrichment profiles.

Author: Charles Joly Beauparlant <charles.joly-beauparlant at>, Fabien Claude Lamaze <fabien.lamaze.1 at>, Rawane Samb <rawane.samb.1 at>, Cedric Lippens <lippens.cedric at protonmail>, Astrid Louise Deschenes <Astrid-Louise.Deschenes at> and Arnaud Droit <arnaud.droit at>.

Maintainer: Charles Joly Beauparlant <charles.joly-beauparlant at>

Citation (from within R, enter citation("metagene")):


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HTML R Script Introduction to metagene
HTML R Script RNA-seq exp ext
PDF   Reference Manual
Text   NEWS


biocViews Alignment, ChIPSeq, Coverage, Genetics, MultipleComparison, Sequencing, Software
Version 2.11.2
In Bioconductor since BioC 3.0 (R-3.1) (3.5 years)
License Artistic-2.0 | file LICENSE
Depends R (>= 3.4.0), R6 (>= 2.0), GenomicRanges, BiocParallel
Imports rtracklayer, gplots, tools, GenomicAlignments, GenomeInfoDb, GenomicFeatures, IRanges, ggplot2, muStat, Rsamtools, DBChIP, matrixStats, purrr, data.table, magrittr, methods, utils, ensembldb, EnsDb.Hsapiens.v86, stringr
Suggests BiocGenerics, similaRpeak, RUnit, knitr, BiocStyle, rmarkdown, similaRpeak
Depends On Me Imetagene
Imports Me
Suggests Me
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Source Package metagene_2.11.2.tar.gz
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