TFHAZ
This is the development version of TFHAZ; for the stable release version, see TFHAZ.
All Bioconductor versions of TFHAZ
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6
Transcription Factor High Accumulation Zones
Bioconductor version: 3.24 · Package version: 1.35.0
It finds trascription factor (TF) high accumulation DNA zones, i.e., regions along the genome where there is a high presence of different transcription factors. Starting from a dataset containing the genomic positions of TF binding regions, for each base of the selected chromosome the accumulation of TFs is computed. Three different types of accumulation (TF, region and base accumulation) are available, together with the possibility of considering, in the single base accumulation computing, the TFs present not only in that single base, but also in its neighborhood, within a window of a given width. Two different methods for the search of TF high accumulation DNA zones, called "binding regions" and "overlaps", are available. In addition, some functions are provided in order to analyze, visualize and compare results obtained with different input parameters.
Author: Alberto Marchesi, Silvia Cascianelli, Marco Masseroli
Maintainer: Gaia Ceddia <gaia.ceddia at polimi.it>
Citation
From within R, enter citation("TFHAZ"):
Alberto Marchesi, Silvia Cascianelli, Marco Masseroli. TFHAZ: Transcription Factor High Accumulation Zones. doi:10.18129/B9.bioc.TFHAZ, R package version 1.35.0, https://bioconductor.org/packages/TFHAZ.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("TFHAZ")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.35.0 |
| License | Artistic-2.0 |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.6 (R-3.4) (8 years) |
| Downloads rank | 796 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | BiologicalQuestion, ChIPSeq, Coverage, Software, Transcription |
| Package Short Url | https://bioconductor.org/packages/TFHAZ/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("TFHAZ")| TFHAZ | HTML | R Script |
| Reference Manual |
Download
Follow the installation instructions to use this package in your R session.
| Source package | TFHAZ_1.35.0.tar.gz |
| Windows binary (x86_64) | TFHAZ_1.35.0.zip |
| macOS binary (arm64) | TFHAZ_1.35.0.tgz |
| macOS binary (x86_64) | TFHAZ_1.35.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/TFHAZ |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/TFHAZ |
| Package Downloads Report | Download Stats |