
BIOCONDUCTOR . ORG {
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Title:
Bioconductor - mnem
Description:
Mixture Nested Effects Models (mnem) is an extension of Nested Effects Models and allows for the analysis of single cell perturbation data provided by methods like Perturb-Seq (Dixit et al., 2016) or Crop-Seq (Datlinger et al., 2017). In those experiments each of many cells is perturbed by a knock-down of a specific gene, i.e. several cells are perturbed by a knock-down of gene A, several by a knock-down of gene B, ... and so forth. The observed read-out has to be multi-trait and in the case of the Perturb-/Crop-Seq gene are expression profiles for each cell. mnem uses a mixture model to simultaneously cluster the cell population into k clusters and and infer k networks causally linking the perturbed genes for each cluster. The mixture components are inferred via an expectation maximization algorithm.
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Keywords {🔍}
bioconductor, package, mnem, packages, version, mixture, nested, effects, models, release, cell, gene, source, perturbed, knockdown, cluster, pirkl, enter, install, stats, reports, binary, learn, developers, started, software, analysis, single, methods, cells, martin, network, installation, start, documentation, system, details, bioc, url, macos, mnemtgz, repository, git, clone, code, registration, open, gbcc, joint, galaxybioconductor,
Topics {✒️}
/cbg-ethz/mnem/ bug reports org/packages/mnem source repository joint galaxy/bioconductor conference /cbg-ethz/mnem/issues bioconductor release tgz source repository source package nested effects models perturb-/crop-seq gene release //code bioconductor support site networks causally linking expectation maximization algorithm script reference manual gz windows binary zip macos binary tgz macos binary package installed martin pirkl [aut git clone https details biocviews wesanderson system requirements package packages started install perturb-seq crop-seq cell population mixture model mixture components bioconductor //bioconductor registration open specific gene observed read multi-trait expression profiles cre] maintainer quietly = true older versions pdf news gpl-3 depends developer access released version devel version systemsbiology version org/10 org 1093/bioinformatics/bty602
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