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R codes for distance based cell lineage reconstruction. Our methods won both sub-challenges 2 and 3 of the Allen Institute Cell Lineage Reconstruction DREAM Challenge in 2020. References: Gong et al. (2021) <doi:10.1016/j.cels.2021.05.008>, Gong et al. (2022) <doi:10.1186/s12859-022-04633-x>.
| Version: | 1.0.13 |
| Depends: | R (≥ 4.1.0), tensorflow (≥ 2.2.0) |
| Imports: | BiocParallel, dplyr, Matrix, matrixStats, ape, phangorn, Rcpp, igraph, methods, purrr, stringr, tidyr, rBayesianOptimization, rlang, BiocGenerics |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | knitr, rmarkdown, markdown |
| Published: | 2023-09-14 |
| Author: | Il-Youp Kwak [aut, cre], Wuming Gong [aut] |
| Maintainer: | Il-Youp Kwak <ikwak2 at cau.ac.kr> |
| License: | GPL-3 |
| URL: | https://github.com/ikwak2/DCLEAR |
| NeedsCompilation: | yes |
| Materials: | README |
| CRAN checks: | DCLEAR results |
| Reference manual: | DCLEAR.pdf |
| Vignettes: |
prediction for subchallenge 3 DCLEAR : Distance based Cell LinEAge Reconstruction-weighted hamming |
| Package source: | DCLEAR_1.0.13.tar.gz |
| Windows binaries: | r-devel: DCLEAR_1.0.13.zip, r-release: DCLEAR_1.0.13.zip, r-oldrel: DCLEAR_1.0.13.zip |
| macOS binaries: | r-release (arm64): DCLEAR_1.0.13.tgz, r-oldrel (arm64): DCLEAR_1.0.13.tgz, r-release (x86_64): DCLEAR_1.0.13.tgz, r-oldrel (x86_64): DCLEAR_1.0.13.tgz |
| Old sources: | DCLEAR archive |
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These binaries (installable software) and packages are in development.
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