PostChicago
This is the development version of PostChicago; to use it, please install the devel version of Bioconductor.
PostChicago - visualization and integration of Capture-(Hi)C data
Bioconductor version: Development (3.24)
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.
Author: Angelika Feldmann [aut, cre]
, Samuel Krall [aut], Belinda Blum [aut]
Maintainer: Angelika Feldmann <angelika.feldmann at dkfz-heidelberg.de>
citation("PostChicago")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("PostChicago")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("PostChicago")| PostChicago | HTML | R Script |
| Reference Manual |
Details
| biocViews | Epigenetics, GeneRegulation, Software, Visualization |
| Version | 0.99.2 |
| In Bioconductor since | BioC 3.24 (R-4.6) |
| License | Artistic-2.0 |
| 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 |
| System Requirements | |
| URL | https://github.com/FeldmannLabDKFZ/PostChicago |
See More
| Suggests | knitr, rmarkdown, testthat (>= 3.0.0), data.table, BiocGenerics, codetools, BiocStyle, ragg |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | PostChicago_0.99.2.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | PostChicago_0.99.2.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/PostChicago |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/PostChicago |
| Bioc Package Browser | https://code.bioconductor.org/browse/PostChicago/ |
| Package Short Url | https://bioconductor.org/packages/PostChicago/ |
| Package Downloads Report | Download Stats |