SpectriPy
This is thereleased version of SpectriPy; for the devel version, seeSpectriPy.
Enhancing Cross-Language Mass Spectrometry Data Analysis with R and Python
Bioconductor version: Release (3.22)
The SpectriPy package allows integration of Python-based MS analysis code with the Spectra package. Spectra objects can be converted into Python MS data structures. In addition, SpectriPy integrates and wraps the similarity scoring and processing/filtering functions from the Python matchms package into R.
Author: Michael Witting [aut]
ORCID: 0000-0002-1462-4426, Johannes Rainer [aut, cre] ORCID: 0000-0002-6977-7147, Carolin Huber [aut] ORCID: 0000-0002-9355-8948, Helge Hecht [ctb] ORCID: 0000-0001-6744-996X, Marilyn De Graeve [aut] ORCID: 0000-0001-6916-401X, Wout Bittremieux [aut] ORCID: 0000-0002-3105-1359, Thomas Naake [aut] ORCID: 0000-0001-7917-5580, Victor Chrone [ctb] ORCID: 0009-0007-2121-4066, Matthias Anagho-Mattanovich [ctb] ORCID: 0000-0001-7561-7898, Pierre Marchal [ctb] ORCID: 0009-0006-6567-6257, Philippine Louail [ctb] ORCID: 0009-0007-5429-6846
Maintainer: Johannes Rainer <Johannes.Rainer at eurac.edu>
citation("SpectriPy")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("SpectriPy")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("SpectriPy")| detailed-installation-configuration.html | HTML | R Script |
| SpectriPy.html | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Infrastructure,MassSpectrometry,Metabolomics,Proteomics,Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.22 (R-4.5) (< 6 months) |
| License | Artistic-2.0 |
| Depends | R (>= 4.4.0),reticulate (>= 1.42.0) |
| Imports | Spectra(>= 1.19.9),IRanges,S4Vectors,MsCoreUtils,ProtGenerics, methods |
| System Requirements | python (>= 3.12), pandoc, quarto |
| URL | https://github.com/RforMassSpectrometry/SpectriPy |
| Bug Reports | https://github.com/RforMassSpectrometry/SpectriPy/issues |
See More
| Suggests | testthat,quarto,MsBackendMgf,MsDataHub,mzR,knitr,BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | SpectriPy_1.0.0.tar.gz |
| Windows Binary (x86_64) | SpectriPy_1.0.0.zip (64-bit only) |
| macOS Binary (x86_64) | SpectriPy_1.0.0.tgz |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/SpectriPy |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/SpectriPy |
| Bioc Package Browser | https://code.bioconductor.org/browse/SpectriPy/ |
| Package Short Url | https://bioconductor.org/packages/SpectriPy/ |
| Package Downloads Report | Download Stats |