LymphoSeq
Analyze high-throughput sequencing of T and B cell receptors
Bioconductor version: 3.23 · Package version: 1.40.0
This R package analyzes high-throughput sequencing of T and B cell receptor complementarity determining region 3 (CDR3) sequences generated by Adaptive Biotechnologies' ImmunoSEQ assay. Its input comes from tab-separated value (.tsv) files exported from the ImmunoSEQ analyzer.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("LymphoSeq")Details
| Maintainer | David Coffey <dcoffey@fredhutch.org> |
| Author | David Coffey <dcoffey@fredhutch.org> |
| License | Artistic-2.0 |
| Downloads rank | 528 |
| Source branch | RELEASE_3_23 |
| biocViews | Alignment, MultipleSequenceAlignment, Sequencing, Software, TargetedResequencing, Technology |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | LymphoSeq_1.40.0.tar.gz |
| Windows binary (x86_64) | LymphoSeq_1.40.0.zip |
| macOS binary (arm64) | LymphoSeq_1.40.0.tgz |
| macOS binary (x86_64) | LymphoSeq_1.40.0.tgz |
Dependencies
Depends: R (>= 3.3), LymphoSeqDB
Imports: data.table, plyr, dplyr, reshape, VennDiagram, ggplot2, ineq, RColorBrewer, circlize, grid, utils, stats, ggtree, msa, Biostrings, phangorn, stringdist, UpSetR