Aligns peak based on peak retention times and matches homologous peaks across samples. The underlying alignment procedure comprises three sequential steps. (1) Full alignment of samples by linear transformation of retention times to maximise similarity among homologous peaks (2) Partial alignment of peaks within a user-defined retention time window to cluster homologous peaks (3) Merging rows that are likely representing homologous substances (i.e. no sample shows peaks in both rows and the rows have similar retention time means). The algorithm is described in detail in Ottensmann et al., 2018 <doi:10.1371/journal.pone.0198311>.
| Version: | 1.0.2 |
| Depends: | R (≥ 3.2.5) |
| Imports: | ggplot2 (≥ 2.2.1), graphics, stats, readr, reshape2, stringr, utils, pbapply |
| Suggests: | knitr, pander, rmarkdown, testthat, vegan (≥ 2.4.2) |
| Published: | 2018-07-16 |
| Author: | Meinolf Ottensmann [aut, cre], Martin Stoffel [aut], Hazel J. Nichols [aut], Joseph I. Hoffman [aut] |
| Maintainer: | Meinolf Ottensmann <meinolf.ottensmann at web.de> |
| BugReports: | https://github.com/mottensmann/GCalignR/issues |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| URL: | https://github.com/mottensmann/GCalignR |
| NeedsCompilation: | no |
| Citation: | GCalignR citation info |
| Materials: | README NEWS |
| CRAN checks: | GCalignR results |
| Reference manual: | GCalignR.pdf |
| Vignettes: |
GCalignR How does the Algorithms work? GCalignR Step by Step |
| Package source: | GCalignR_1.0.2.tar.gz |
| Windows binaries: | r-devel: GCalignR_1.0.2.zip, r-release: GCalignR_1.0.2.zip, r-oldrel: GCalignR_1.0.2.zip |
| macOS binaries: | r-release: GCalignR_1.0.2.tgz, r-oldrel: GCalignR_1.0.2.tgz |
| Old sources: | GCalignR archive |
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