AlpsNMR
This is the development version of AlpsNMR; for the stable release version, see AlpsNMR.
Automated spectraL Processing System for NMR
Bioconductor version: Development (3.18)
Reads Bruker NMR data directories both zipped and unzipped. It provides automated and efficient signal processing for untargeted NMR metabolomics. It is able to interpolate the samples, detect outliers, exclude regions, normalize, detect peaks, align the spectra, integrate peaks, manage metadata and visualize the spectra. After spectra proccessing, it can apply multivariate analysis on extracted data. Efficient plotting with 1-D data is also available. Basic reading of 1D ACD/Labs exported JDX samples is also available.
Author: Ivan Montoliu Roura [aut], Sergio Oller Moreno [aut, cre] 
, Francisco Madrid Gambin [aut] , Luis Fernandez [aut] , Laura López Sánchez [ctb], Héctor Gracia Cabrera [aut], Santiago Marco Colás [aut] , Nestlé Institute of Health Sciences [cph], Institute for Bioengineering of Catalonia [cph]
Maintainer: Sergio Oller Moreno <sergioller at gmail.com>
citation("AlpsNMR")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("AlpsNMR")For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | Cheminformatics, Classification, DataImport, Metabolomics, Preprocessing, Software, Visualization |
| Version | 4.3.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (3 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.2), future (>= 1.10.0) |
| Imports | utils, generics, graphics, stats, grDevices, cli, magrittr (>= 1.5), dplyr (>= 1.1.0), signal (>= 0.7-6), rlang (>= 0.3.0.1), scales (>= 1.2.0), stringr (>= 1.3.1), tibble (>= 1.3.4), tidyr (>= 1.0.0), tidyselect, readxl (>= 1.1.0), purrr (>= 0.2.5), glue (>= 1.2.0), reshape2 (>= 1.4.3), mixOmics(>= 6.22.0), matrixStats (>= 0.54.0), fs (>= 1.2.6), rmarkdown (>= 1.10), speaq (>= 2.4.0), htmltools (>= 0.3.6), pcaPP (>= 1.9-73), ggplot2 (>= 3.1.0), baseline (>= 1.2-1), vctrs (>= 0.3.0), BiocParallel |
| Linking To | |
| Suggests | BiocStyle, ChemoSpec, cowplot, curl, DT (>= 0.5), GGally (>= 1.4.0), ggrepel (>= 0.8.0), gridExtra, knitr, plotly (>= 4.7.1), progressr, SummarizedExperiment, S4Vectors, testthat (>= 2.0.0), writexl (>= 1.0), zip (>= 2.0.4) |
| System Requirements | |
| Enhances | |
| URL | https://sipss.github.io/AlpsNMR/ https://github.com/sipss/AlpsNMR |
| Bug Reports | https://github.com/sipss/AlpsNMR/issues |
See More
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary | |
| macOS Binary (x86_64) | AlpsNMR_4.3.0.tgz |
| macOS Binary (arm64) | AlpsNMR_4.3.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/AlpsNMR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/AlpsNMR |
| Bioc Package Browser | https://code.bioconductor.org/browse/AlpsNMR/ |
| Package Short Url | https://bioconductor.org/packages/AlpsNMR/ |
| Package Downloads Report | Download Stats |