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
| Maintainer | Angelika Feldmann <angelika.feldmann@dkfz-heidelberg.de> |
| Author | Angelika Feldmann [aut, cre] (ORCID: <https://orcid.org/0000-0001-7094-8081>), Samuel Krall [aut], Belinda Blum [aut] |
| License | Artistic-2.0 |
| URL | https://github.com/FeldmannLabDKFZ/PostChicago |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Epigenetics, GeneRegulation, Software, Visualization |
| Package Short Url | https://bioconductor.org/packages/PostChicago/ |
Citation
From within R, enter citation("PostChicago"):
Angelika Feldmann, Samuel Krall, Belinda Blum. PostChicago: PostChicago - visualization and integration of Capture-(Hi)C data. doi:10.18129/B9.bioc.PostChicago, R package version 0.99.4, https://bioconductor.org/packages/PostChicago.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | PostChicago_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