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. More details on Ghannoum et. al. (2021) <doi:10.3390/ijms22031399>. This package implements extensions of the work published by Ghannoum et. al. (2019) <doi:10.1101/700989>.
| Version: | 1.2.2 |
| Depends: | R (≥ 4.0),SingleCellExperiment |
| Imports: | methods,TSCAN,httr,mclust,statmod,igraph,RWeka,vegan,NetIndices,png, grDevices,RColorBrewer,ggplot2,rpart,fpc,cluster,rpart.plot,tsne,AnnotationDbi,org.Hs.eg.db, graphics, stats, utils,impute,withr |
| Suggests: | testthat,Seurat |
| Published: | 2023-11-06 |
| DOI: | 10.32614/CRAN.package.DIscBIO |
| 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 + fileLICENSE |
| URL: | https://github.com/ocbe-uio/DIscBIO |
| NeedsCompilation: | no |
| Materials: | NEWS |
| In views: | Omics |
| CRAN checks: | DIscBIO results |