DIscBIO: A User-Friendly Pipeline for Biomarker Discovery in Single-Cell Transcriptomics

An open, multi-algorithmic pipeline for easy, fast and efficient analysis of cellular sub-populations and the molecular signatures that characterize them. The pipeline consists of four successive steps: data pre-processing, cellular clustering with pseudo-temporal ordering, defining differential expressed genes and biomarker identification. This package implements extensions of the work published by Ghannoum et. al. (2019) <doi:10.1101/700989>.

Version: 1.0.0
Depends: R (≥ 4.0), SingleCellExperiment
Imports: methods, TSCAN, boot, httr, mclust, statmod, igraph, RWeka, philentropy, NetIndices, png, grDevices, readr, RColorBrewer, ggplot2, rpart, fpc, cluster, rpart.plot, tsne, AnnotationDbi, org.Hs.eg.db, graphics, stats, utils, impute
Suggests: testthat, Seurat
Published: 2020-08-26
Author: Salim Ghannoum [aut, cph], Alvaro Köhn-Luque [aut, ths], Waldir Leoncio [cre, aut], Damiano Fantini [ctb]
Maintainer: Waldir Leoncio <w.l.netto at medisin.uio.no>
BugReports: https://github.com/ocbe-uio/DIscBIO/issues
License: MIT + file LICENSE
URL: https://github.com/ocbe-uio/DIscBIO#usage
NeedsCompilation: no
CRAN checks: DIscBIO results

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Reference manual: DIscBIO.pdf
Package source: DIscBIO_1.0.0.tar.gz
Windows binaries: r-devel: DIscBIO_1.0.0.zip, r-release: DIscBIO_1.0.0.zip, r-oldrel: not available
macOS binaries: r-release: not available, r-oldrel: not available

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