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DCLEAR: Distance Based Cell Lineage Reconstruction

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

Documentation:

Reference manual: DCLEAR.pdf
Vignettes: prediction for subchallenge 3
DCLEAR : Distance based Cell LinEAge Reconstruction-weighted hamming

Downloads:

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

Linking:

Please use the canonical form https://CRAN.R-project.org/package=DCLEAR 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.
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