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, org.Hs.eg.db, org.Mm.eg.db, 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 gmail.com> |
| License: |
GPL-2 |
| NeedsCompilation: |
no |
| Materials: |
README NEWS |
| CRAN checks: |
Platypus results |