doblin: 'doblin': Inferring Dominant Clonal Lineages from DNA Barcoding Time-Series

Provides functions to quantify dominant clonal lineages from DNA barcoding time-series data. The package implements clustering of barcode lineage trajectories, based on the assumption that similar temporal dynamics indicate comparable relative fitness. It also identifies persistent clonal lineages across time points. Input data can include lineage frequency tables derived from chromosomal barcoding, mutational libraries, or CRISPR/Cas screens. For more details, see Gagné-Leroux et al. (2024) <doi:10.1101/2024.09.08.611892>.

Version:	0.1.1
Imports:	entropy, gplots, lazyeval, proxy, grid, ggthemes, ggplot2, magrittr, dplyr, ggnewscale, readr, data.table, reshape2, grDevices, stats, imputeTS, dtwclust, purrr, tidyr, TSdist, graphics
Suggests:	knitr, rmarkdown, testthat (≥ 3.0.0), devtools, ggpubr, optparse, pryr
Published:	2025-05-21
Author:	Adrian Serohijos [aut, cre], David Gagné-Leroux [ctb], Melis Gencel [ctb], Louis Gauthier [ctb]
Maintainer:	Adrian Serohijos <adrian.serohijos at umontreal.ca>
License:	GPL-3
NeedsCompilation:	no
Materials:	README
CRAN checks:	doblin results

Documentation:

Reference manual:	doblin.pdf
Vignettes:	Introduction to doblin (source, R code)

Downloads:

Package source:	doblin_0.1.1.tar.gz
Windows binaries:	r-devel: not available, r-release: not available, r-oldrel: not available
macOS binaries:	r-release (arm64): not available, r-oldrel (arm64): not available, r-release (x86_64): not available, r-oldrel (x86_64): not available

Linking:

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