RiboCrypt
Interactive visualization in genomics
Bioconductor version: Release (3.20)
R Package for interactive visualization and browsing NGS data. It contains a browser for both transcript and genomic coordinate view. In addition a QC and general metaplots are included, among others differential translation plots and gene expression plots. The package is still under development.
Author: Michal Swirski [aut, cre, cph], Haakon Tjeldnes [aut, ctb], Kornel Labun [ctb]
Maintainer: Michal Swirski <michal.swirski at uw.edu.pl>
citation("RiboCrypt")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("RiboCrypt")
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("RiboCrypt")| RiboCrypt_app_tutorial.html | HTML | R Script |
| RiboCrypt_overview.html | HTML | R Script |
| Reference Manual | ||
| LICENSE | Text |
Details
| biocViews | RNASeq, RiboSeq, Sequencing, Software |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.14 (R-4.1) (3 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 3.6.0), ORFik(>= 1.13.12) |
| Imports | bslib, BiocGenerics, BiocParallel, Biostrings, data.table, dplyr, GenomeInfoDb, GenomicFeatures, GenomicRanges, ggplot2, htmlwidgets, httr, IRanges, jsonlite, knitr, markdown, NGLVieweR, plotly, rlang, RCurl, shiny, shinycssloaders, shinyhelper, shinyjqui, stringr |
| System Requirements | |
| URL | https://github.com/m-swirski/RiboCrypt |
| Bug Reports | https://github.com/m-swirski/RiboCrypt/issues |
See More
| Suggests | testthat, rmarkdown, BiocStyle, BSgenome, BSgenome.Hsapiens.UCSC.hg19 |
| 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 | RiboCrypt_1.12.0.tar.gz |
| Windows Binary (x86_64) | RiboCrypt_1.12.0.zip (64-bit only) |
| macOS Binary (x86_64) | RiboCrypt_1.12.0.tgz |
| macOS Binary (arm64) | RiboCrypt_1.11.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/RiboCrypt |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RiboCrypt |
| Bioc Package Browser | https://code.bioconductor.org/browse/RiboCrypt/ |
| Package Short Url | https://bioconductor.org/packages/RiboCrypt/ |
| Package Downloads Report | Download Stats |