Package: Platypus
Type: Package
Title: Single-Cell Immune Repertoire and Gene Expression Analysis
Description: 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
Date: 2022-01-24
Authors@R: c(person("Alexander", "Yermanos", role = c("aut", "cre"), email = "ayermanos@gmail.com"),
             person("Andreas", "Agrafiotis", role = "ctb"),
             person("Raphael", "Kuhn", role = "ctb"),
	     person("Victor", "Kreiner", role = "ctb"),
             person("Damiano", "Robbiani", role = "ctb"),
             person("Josephine", "Yates", role = "ctb"),
             person("Jiami", "Han", role = "ctb"),
             person("Chrysa", "Papadopoulou", role = "ctb"),
             person("Cédric", "Weber", role = "ctb"),
	     person("Danielle", "Shlesinger", role = "ctb"),
	     person("Raphael", "Dizerens", role = "ctb"))
Maintainer: Alexander Yermanos <ayermanos@gmail.com>
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, org.Mm.eg.db, pheatmap,
        phytools, purrr, readxl, reticulate, scales,
        SummarizedExperiment, stringdist, tensorflow, tidytree,
        tidyselect, vegan, testthat (>= 3.0.0)
License: GPL-2
Encoding: UTF-8
RoxygenNote: 7.1.1
VignetteBuilder: knitr
LazyData: true
Config/testthat/edition: 3
NeedsCompilation: no
Packaged: 2022-01-26 20:36:19 UTC; vkreiner
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],
  Cédric Weber [ctb],
  Danielle Shlesinger [ctb],
  Raphael Dizerens [ctb]
Repository: CRAN
Date/Publication: 2022-01-27 23:20:16 UTC
Built: R 4.0.5; ; 2022-01-28 12:11:20 UTC; unix
