Platypus: Single-Cell Immune Repertoire and Gene Expression Analysis

We present 'Platypus', an open-source software platform providing a user-friendly interface to investigate B-cell receptor and T-cell receptor repertoires from scSeq experiments. 'Platypus' provides a framework to automate and ease the analysis of single-cell immune repertoires while also incorporating transcriptional information involving unsupervised clustering, gene expression and gene ontology (Yermanos A, et al (2021) <doi:10.1093/nargab/lqab023>).

Version: 3.3.2
Depends: R (≥ 3.5.0)
Imports: BiocGenerics, Biostrings, dplyr, ggplot2, jsonlite, knitr, Matrix (≥ 1.3-3), plyr, reshape2, seqinr, stringr, Seurat, SeuratObject, tibble, tidyr, utils, useful
Suggests: AnnotationDbi, ape, circlize, cowplot, data.table, doParallel, fda.usc, fgsea, ggalluvial, ggtree, ggrepel, ggridges, ggseqlogo, grid, gridExtra, harmony, igraph, IRanges, limma, keras, methods, msigdbr,, pheatmap, phytools, purrr, readxl, reticulate, scales, SummarizedExperiment, stringdist, tensorflow, tidytree, tidyselect, vegan, testthat (≥ 3.0.0)
Published: 2022-01-27
Author: Alexander Yermanos [aut, cre], Andreas Agrafiotis [ctb], Raphael Kuhn [ctb], Victor Kreiner [ctb], Damiano Robbiani [ctb], Josephine Yates [ctb], Jiami Han [ctb], Chrysa Papadopoulou [ctb], C├ędric Weber [ctb], Danielle Shlesinger [ctb], Raphael Dizerens [ctb]
Maintainer: Alexander Yermanos <ayermanos at>
License: GPL-2
NeedsCompilation: no
Materials: README
CRAN checks: Platypus results


Reference manual: Platypus.pdf
Vignettes: PlatypusV3 AgedCNS vignette


Package source: Platypus_3.3.2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel: not available
macOS binaries: r-release (arm64): Platypus_3.3.2.tgz, r-release (x86_64): Platypus_3.3.2.tgz, r-oldrel: Platypus_3.3.2.tgz
Old sources: Platypus archive


Please use the canonical form to link to this page.