maldipickr: Dereplicate and Cherry-Pick Mass Spectrometry Spectra
Convenient wrapper functions for the analysis of matrix-assisted laser desorption/ionization-time-of-flight (MALDI-TOF) spectra data in order to select only representative spectra (also called cherry-pick). The package covers the preprocessing and dereplication steps (based on Strejcek, Smrhova, Junkova and Uhlik (2018) <doi:10.3389/fmicb.2018.01294>) needed to cluster MALDI-TOF spectra before the final cherry-picking step. It enables the easy exclusion of spectra and/or clusters to accommodate complex cherry-picking strategies. Alternatively, cherry-picking using taxonomic identification MALDI-TOF data is made easy with functions to import inconsistently formatted reports.
| Version: | 1.3.1 |
| Depends: | R (≥ 3.2.0) |
| Imports: | dplyr,lifecycle,magrittr,MALDIquant,readBrukerFlexData,rlang, stats,tibble,tidyr,tidyselect, tools, utils |
| Suggests: | coop,knitr,rmarkdown,spelling,testthat |
| Published: | 2024-09-12 |
| DOI: | 10.32614/CRAN.package.maldipickr |
| Author: | Charlie Pauvert [aut, cre, cph], David Wylensek [ctb], Selina Nüchtern [ctb], Thomas Clavel [ctb, fnd, cph] |
| Maintainer: | Charlie Pauvert <cpauvert at ukaachen.de> |
| BugReports: | https://github.com/ClavelLab/maldipickr/issues |
| License: | GPL (≥ 3) |
| URL: | https://github.com/ClavelLab/maldipickr,https://clavellab.github.io/maldipickr/ |
| NeedsCompilation: | no |
| Language: | en-US |
| Citation: | maldipickr citation info |
| Materials: | README,NEWS |
| CRAN checks: | maldipickr results |
Documentation:
| Reference manual: | maldipickr.html ,maldipickr.pdf |
| Vignettes: | dereplicate-bruker-maldi-biotyper-spectra (source,R code) import-data-from-bruker-maldi-biotyper (source,R code) maldipickr (source,R code) |
Downloads:
| Package source: | maldipickr_1.3.1.tar.gz |
| Windows binaries: | r-devel:maldipickr_1.3.1.zip, r-release:maldipickr_1.3.1.zip, r-oldrel:maldipickr_1.3.1.zip |
| macOS binaries: | r-release (arm64):maldipickr_1.3.1.tgz, r-oldrel (arm64):maldipickr_1.3.1.tgz, r-release (x86_64):maldipickr_1.3.1.tgz, r-oldrel (x86_64):maldipickr_1.3.1.tgz |
| Old sources: | maldipickr archive |
Linking:
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