DOI: 10.18129/B9.bioc.fcoex    

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see fcoex.

FCBF-based Co-Expression Networks for Single Cells

Bioconductor version: 3.11

The fcoex package implements an easy-to use interface to co-expression analysis based on the FCBF (Fast Correlation-Based Filter) algorithm. it was implemented especifically to deal with single-cell data. The modules found can be used to redefine cell populations, unrevel novel gene associations and predict gene function by guilt-by-association. The package structure is adapted from the CEMiTool package, relying on visualizations and code designed and written by CEMiTool's authors.

Author: Tiago Lubiana [aut, cre], Helder Nakaya [aut, ths]

Maintainer: Tiago Lubiana <tiago.lubiana.alves at usp.br>

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biocViews GeneExpression, GraphAndNetwork, ImmunoOncology, Network, NetworkEnrichment, Pathways, RNASeq, SingleCell, Software, Transcriptomics, mRNAMicroarray
Version 1.2.0
In Bioconductor since BioC 3.10 (R-3.6) (1 year)
License GPL-3
Depends R (>= 3.5.0)
Imports FCBF, parallel, progress, dplyr, ggplot2, ggrepel, igraph, grid, intergraph, stringr, clusterProfiler, data.table, grDevices, methods, network, scales, sna, utils, stats, SingleCellExperiment, pathwayPCA
Suggests testthat (>= 2.1.0), devtools, BiocManager, TENxPBMCData, scater, gridExtra, scran, Seurat, knitr
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