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 |
| DOI: | 10.32614/CRAN.package.DCLEAR |
| 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.html ,DCLEAR.pdf |
| Vignettes: | prediction for subchallenge 3 (source,R code) DCLEAR : Distance based Cell LinEAge Reconstruction-weighted hamming (source,R code) |
| 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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