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PostChicago

PostChicago - visualization and integration of Capture-(Hi)C data

Bioconductor version: 3.24 · Package version: 0.99.4

PostCHiCAGO (stylized from here as PostChicago) is a toolbox for visualising and assessing the output from the CHiCAGO pipeline (SOURCE). The plots created by PostChicago show reads or CHiCAGO scores over different regions. PostChicago can integrate different experiments with other types of datasets and compare separate conditions.

Installation

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

BiocManager::install("PostChicago")

Details

MaintainerAngelika Feldmann <angelika.feldmann@dkfz-heidelberg.de>
AuthorAngelika Feldmann [aut, cre] (ORCID: <https://orcid.org/0000-0001-7094-8081>), Samuel Krall [aut], Belinda Blum [aut]
LicenseArtistic-2.0
URLhttps://github.com/FeldmannLabDKFZ/PostChicago
Downloads rank50
Source branchdevel
biocViewsEpigenetics, GeneRegulation, Software, Visualization

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source packagePostChicago_0.99.4.tar.gz
Windows binary (x86_64)PostChicago_0.99.4.zip
macOS binary (arm64)PostChicago_0.99.4.tgz
macOS binary (x86_64)PostChicago_0.99.4.tgz
Dependencies

Depends: R (>= 4.4.0)

Imports: GenomicRanges, pheatmap, S4Vectors, IRanges, ggplot2, RColorBrewer, Chicago, utils, graphics, grDevices, stringr, gridExtra, BiocFileCache, matrixStats, rtracklayer, patchwork, dplyr, tidyr, rlang, data.table

Suggests: knitr, rmarkdown, testthat (>= 3.0.0), BiocGenerics, codetools, BiocStyle, ragg