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: 3.3.5
Depends: R (≥ 3.5.0)
Imports: BiocGenerics, Biostrings, cowplot, dplyr, ggplot2, jsonlite, knitr, Matrix (≥ 1.3-3), plyr, reshape2, seqinr, stringr, Seurat, SeuratObject, tibble, tidyr, utils, useful
Suggests: AnnotationDbi, ape, circlize, data.table, doParallel, fda.usc, fgsea, ggalluvial, ggtree, ggrepel, ggridges, ggseqlogo, grid, gridExtra, harmony, igraph, IRanges, limma, keras, methods, msigdbr,,, pheatmap, phytools, purrr, readr, readxl, reticulate, scales, SummarizedExperiment, stringdist, tensorflow, tidytree, tidyselect, vegan, testthat (≥ 3.0.0)
Published: 2022-04-11
Author: Alexander Yermanos [aut, cre], Andreas Agrafiotis [ctb], Raphael Kuhn [ctb], Danielle Shlesinger [ctb], Jiami Han [ctb], Tudor-Stefan Cotet [ctb], Victor Kreiner [ctb]
Maintainer: Alexander Yermanos <ayermanos at>
License: GPL-2
NeedsCompilation: no
Materials: README NEWS
CRAN checks: Platypus results


Reference manual: Platypus.pdf
Vignettes: PlatypusV3 AgedCNS vignette


Package source: Platypus_3.3.5.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): Platypus_3.3.5.tgz, r-oldrel (arm64): Platypus_3.3.5.tgz, r-release (x86_64): Platypus_3.3.5.tgz, r-oldrel (x86_64): Platypus_3.3.5.tgz
Old sources: Platypus archive


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