A RetroSearch Logo

Home - News ( United States | United Kingdom | Italy | Germany ) - Football scores

Search Query:

Showing content from https://www.bioconductor.org/packages/devel/bioc/html/../../bioc/html/scRepertoire.html below:

Bioconductor - scRepertoire (development version)

scRepertoire

This is the development version of scRepertoire; for the stable release version, see scRepertoire.

A toolkit for single-cell immune receptor profiling

Bioconductor version: Development (3.22)

scRepertoire is a toolkit for processing and analyzing single-cell T-cell receptor (TCR) and immunoglobulin (Ig). The scRepertoire framework supports use of 10x, AIRR, BD, MiXCR, Omniscope, TRUST4, and WAT3R single-cell formats. The functionality includes basic clonal analyses, repertoire summaries, distance-based clustering and interaction with the popular Seurat and SingleCellExperiment/Bioconductor R workflows.

Author: Nick Borcherding [aut, cre], Qile Yang [aut], Ksenia Safina [aut], Justin Reimertz [ctb]

Maintainer: Nick Borcherding <ncborch at gmail.com>

Citation (from within R, enter citation("scRepertoire")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("scRepertoire")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("scRepertoire")
Details biocViews Annotation, Classification, ImmunoOncology, Sequencing, SingleCell, Software Version 2.5.2 In Bioconductor since BioC 3.12 (R-4.0) (4.5 years) License MIT + file LICENSE Depends ggplot2, R (>= 4.0) Imports assertthat, cubature, dplyr, evmix, ggalluvial, ggdendro, ggraph, grDevices, igraph, immApex, iNEXT, plyr, quantreg, Rcpp, reshape2, rjson, rlang, S4Vectors, SeuratObject, SingleCellExperiment, stringr, stringdist, SummarizedExperiment, tidygraph, truncdist, VGAM, purrr, lifecycle, methods System Requirements URL https://www.borch.dev/uploads/scRepertoire/ Bug Reports https://github.com/BorchLab/scRepertoire/issues See More Suggests BiocManager, BiocStyle, circlize, knitr, rmarkdown, scales, scater, Seurat, spelling, testthat (>= 3.0.0), vdiffr, withr Linking To Rcpp Enhances Depends On Me Imports Me Suggests Me dandelionR, immApex Links To Me Build Report Build Report Package Archives

Follow Installation instructions to use this package in your R session.

RetroSearch is an open source project built by @garambo | Open a GitHub Issue

Search and Browse the WWW like it's 1997 | Search results from DuckDuckGo

HTML: 3.2 | Encoding: UTF-8 | Version: 0.7.4