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.
Supervised learning from a source distribution (with known segmentation into cell sub-populations) to fit a target distribution with unknown segmentation. It relies regularized optimal transport to directly estimate the different cell population proportions from a biological sample characterized with flow cytometry measurements. It is based on the regularized Wasserstein metric to compare cytometry measurements from different samples, thus accounting for possible mis-alignment of a given cell population across sample (due to technical variability from the technology of measurements). Supervised learning technique based on the Wasserstein metric that is used to estimate an optimal re-weighting of class proportions in a mixture model Details are presented in Freulon P, Bigot J and Hejblum BP (2021) <doi:10.48550/arXiv.2006.09003>.
| Version: | 0.9.4 |
| Depends: | R (≥ 3.6) |
| Imports: | ggplot2 (≥ 3.0.0), MetBrewer, patchwork, reshape2, reticulate, stats, testthat (≥ 3.0.0) |
| Suggests: | rmarkdown, knitr, covr |
| Published: | 2022-02-09 |
| DOI: | 10.32614/CRAN.package.CytOpT |
| Author: | Boris Hejblum [aut, cre], Paul Freulon [aut], Kalidou Ba [aut, trl] |
| Maintainer: | Boris Hejblum <boris.hejblum at u-bordeaux.fr> |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| URL: | https://sistm.github.io/CytOpT-R/, https://github.com/sistm/CytOpT-R/ |
| NeedsCompilation: | no |
| SystemRequirements: | Python (>= 3.7) |
| Language: | en-US |
| Citation: | CytOpT citation info |
| Materials: | README NEWS |
| CRAN checks: | CytOpT results |
| Reference manual: | CytOpT.pdf |
| Vignettes: |
User guide for executing 'CytOpT' on 'HIPC' data |
| Package source: | CytOpT_0.9.4.tar.gz |
| Windows binaries: | r-devel: CytOpT_0.9.4.zip, r-release: CytOpT_0.9.4.zip, r-oldrel: CytOpT_0.9.4.zip |
| macOS binaries: | r-release (arm64): CytOpT_0.9.4.tgz, r-oldrel (arm64): CytOpT_0.9.4.tgz, r-release (x86_64): CytOpT_0.9.4.tgz, r-oldrel (x86_64): CytOpT_0.9.4.tgz |
| Old sources: | CytOpT archive |
Please use the canonical form https://CRAN.R-project.org/package=CytOpT 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.