The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.
Provides functionality for quality control processing and statistical analysis of mass spectrometry (MS) omics data, in particular proteomic (either at the peptide or the protein level), lipidomic, and metabolomic data, as well as RNA-seq based count data and nuclear magnetic resonance (NMR) data. This includes data transformation, specification of groups that are to be compared against each other, filtering of features and/or samples, data normalization, data summarization (correlation, PCA), and statistical comparisons between defined groups. Implements methods described in: Webb-Robertson et al. (2014) <doi:10.1074/mcp.M113.030932>. Webb-Robertson et al. (2011) <doi:10.1002/pmic.201100078>. Matzke et al. (2011) <doi:10.1093/bioinformatics/btr479>. Matzke et al. (2013) <doi:10.1002/pmic.201200269>. Polpitiya et al. (2008) <doi:10.1093/bioinformatics/btn217>. Webb-Robertson et al. (2010) <doi:10.1021/pr1005247>.
| Version: | 2.4.6 |
| Depends: | R (≥ 3.5.0) |
| Imports: | Rcpp (≥ 0.12.8), data.table, doParallel, dplyr, ggplot2, e1071, foreach, methods, mvtnorm, pcaMethods, purrr, rrcov, stringr, tidyr (≥ 1.3.0), RColorBrewer, magrittr, parallelly, patchwork, glmpca |
| LinkingTo: | Rcpp, RcppArmadillo, BH |
| Suggests: | knitr, limma, rmarkdown, edgeR, DESeq2, plotly, scales, S4Vectors, survival, testthat, trelliscopejs, pmartRdata, vdiffr |
| Published: | 2024-10-14 |
| DOI: | 10.32614/CRAN.package.pmartR |
| Author: | Lisa Bramer [aut, cre], Kelly Stratton [aut], Daniel Claborne [aut], Evan Glasscock [ctb], Rachel Richardson [ctb], David Degnan [ctb], Evan Martin [ctb] |
| Maintainer: | Lisa Bramer <lisa.bramer at pnnl.gov> |
| BugReports: | https://github.com/pmartR/pmartR/issues |
| License: | BSD_2_clause + file LICENSE |
| URL: | https://pmartr.github.io/pmartR/, https://github.com/pmartR/pmartR |
| NeedsCompilation: | yes |
| Additional_repositories: | https://pmartR.github.io/drat |
| Citation: | pmartR citation info |
| Materials: | README |
| CRAN checks: | pmartR results |
| Reference manual: | pmartR.pdf |
| Package source: | pmartR_2.4.6.tar.gz |
| Windows binaries: | r-devel: pmartR_2.4.6.zip, r-release: pmartR_2.4.6.zip, r-oldrel: pmartR_2.4.6.zip |
| macOS binaries: | r-release (arm64): pmartR_2.4.6.tgz, r-oldrel (arm64): pmartR_2.4.6.tgz, r-release (x86_64): pmartR_2.4.6.tgz, r-oldrel (x86_64): pmartR_2.4.6.tgz |
| Old sources: | pmartR archive |
Please use the canonical form https://CRAN.R-project.org/package=pmartR to link to this page.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.