Aerith
This is the development version of Aerith; to use it, please install the devel version of Bioconductor.
visualization and annotation of isotopic enrichment patterns of peptides and metabolites with stable isotope labeling from proteomics and metabolomics
Bioconductor version: Development (3.23)
Visualisation of peptide isotopic peaks and SIP peptide spectra match (PSM). Filtration of high quality PSM. Accurate isotopic abundance calculation of peptide and metabolites. Visualisation of SIP proteomics results.
Maintainer: Yi Xiong <yixiong at ou.edu>
citation("Aerith")):
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("Aerith")
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("Aerith")| Input-data-format | HTML | R Script |
| Input-data-format | HTML | R Script |
| PSM-annotation-and-visualization | HTML | R Script |
| Score-function-test-of-PSM | HTML | R Script |
| Theoretic-spectra-generation-of-SIP-labeled-compound | HTML | R Script |
| Theoretic-spectra-generation-of-SIP-labeled-peptide | HTML | R Script |
| Visualization-of-SIP-proteomic-result | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Annotation, MassSpectrometry, Metabolomics, Proteomics, QualityControl, Software, Visualization |
| Version | 0.99.11 |
| In Bioconductor since | BioC 3.23 (R-4.6) |
| License | GPL-3 |
| Depends | R (>= 4.4.0) |
| Imports | mzR, MSnbase, methods, Rcpp, ggplot2, ggrepel, ggnewscale, dplyr, tidyr, stringr, data.table, scales |
| System Requirements | C++17 |
| URL | https://github.com/xyz1396/Aerith |
| Bug Reports | https://github.com/xyz1396/Aerith/issues |
See More
| Suggests | knitr, rmarkdown, testthat |
| Linking To | Rcpp |
| 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 | Aerith_0.99.11.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | Aerith_0.99.11.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Aerith |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Aerith |
| Bioc Package Browser | https://code.bioconductor.org/browse/Aerith/ |
| Package Short Url | https://bioconductor.org/packages/Aerith/ |
| Package Downloads Report | Download Stats |