Package: nucleoSim 1.40.0

Astrid Deschênes

nucleoSim: Generate synthetic nucleosome maps

This package can generate a synthetic map with reads covering the nucleosome regions as well as a synthetic map with forward and reverse reads emulating next-generation sequencing. The synthetic hybridization data of “Tiling Arrays” can also be generated. The user has choice between three different distributions for the read positioning: Normal, Student and Uniform. In addition, a visualization tool is provided to explore the synthetic nucleosome maps.

Authors:Rawane Samb [aut], Astrid Deschênes [cre, aut], Pascal Belleau [aut], Arnaud Droit [aut]

nucleoSim_1.40.0.tar.gz
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nucleoSim_1.40.0.tgz(r-4.6-any)nucleoSim_1.40.0.tgz(r-4.5-any)
nucleoSim_1.40.0.tar.gz(r-4.7-any)nucleoSim_1.40.0.tar.gz(r-4.6-any)
nucleoSim_1.40.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
nucleoSim/json (API)
NEWS

# Install 'nucleoSim' in R:

install.packages('nucleoSim', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/arnauddroitlab/nucleosim/issues

On BioConductor:nucleoSim-1.41.0(bioc 3.24)nucleoSim-1.40.0(bioc 3.23)

genetics sequencing software statisticalmethod alignment bioconductor nucleosome-maps nucleosomes simulation simulator synthetic-nucleosomes

5.00 score 2 stars 9 scripts 373 downloads 3 exports 4 dependencies

Last updated from:d807a7a21e (on RELEASE_3_23). Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: no.

Target	Result	Time
bioc-checks	WARNING	139
linux-devel-x86_64	NOTE	213
source / vignettes	OK	176
linux-release-x86_64	NOTE	194
macos-release-arm64	NOTE	135
macos-oldrel-arm64	NOTE	99
windows-devel	NOTE	100
windows-release	NOTE	102
windows-oldrel	NOTE	90
wasm-release	OK	98

Exports:syntheticNucMapFromDist syntheticNucReadsFromDist syntheticNucReadsFromMap

Dependencies:BiocGenerics generics IRanges S4Vectors

Generate synthetic nucleosome maps

Rendered fromnucleoSim.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2017-09-06
Started: 2016-03-06

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
nucleoSim: Generate synthetic nucleosome maps	nucleoSim-package nucleoSim
Generate a graph of a synthetic nucleosome map	plot.syntheticNucMap
Generate a graph of a synthetic nucleosome map containing forward and reverse reads	plot.syntheticNucReads
Generate a synthetic nucleosome map containing complete sequences	syntheticNucMapFromDist
Generate a synthetic nucleosome map containing forward and reverse reads (paired-end reads)	syntheticNucReadsFromDist
Generate a synthetic nucleosome map containing forward and reverse reads	syntheticNucReadsFromMap