Bioconductor version: Release (3.14)
LACE is an algorithmic framework that processes single-cell somatic mutation profiles from cancer samples collected at different time points and in distinct experimental settings, to produce longitudinal models of cancer evolution. The approach solves a Boolean Matrix Factorization problem with phylogenetic constraints, by maximizing a weighed likelihood function computed on multiple time points.
Author: Daniele Ramazzotti [aut] , Fabrizio Angaroni [aut], Davide Maspero [cre, aut], Alex Graudenzi [aut], Luca De Sano [aut]
Maintainer: Davide Maspero <d.maspero at campus.unimib.it>
Citation (from within R,
enter citation("LACE")
):
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("LACE")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("LACE")
R Script | LACE | |
Reference Manual | ||
Text | NEWS | |
Text | LICENSE |
biocViews | BiomedicalInformatics, SingleCell, Software, SomaticMutation |
Version | 1.6.0 |
In Bioconductor since | BioC 3.11 (R-4.0) (2 years) |
License | file LICENSE |
Depends | R (>= 4.1.0) |
Imports | data.tree, graphics, grDevices, igraph, parallel, RColorBrewer, Rfast, stats, SummarizedExperiment, utils |
LinkingTo | |
Suggests | BiocGenerics, BiocStyle, testthat, knitr |
SystemRequirements | |
Enhances | |
URL | https://github.com/BIMIB-DISCo/LACE |
BugReports | https://github.com/BIMIB-DISCo/LACE |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | LACE_1.6.0.tar.gz |
Windows Binary | LACE_1.6.0.zip |
macOS 10.13 (High Sierra) | LACE_1.6.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/LACE |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/LACE |
Package Short Url | https://bioconductor.org/packages/LACE/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.14 | Source Archive |
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