LymphoSeq

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.

Installation instructions

Install release version 1.14.0

Install from Bioconductor

source("https://bioconductor.org/biocLite.R")
biocLite("LymphoSeq")

Install developer version 1.14.1

Option 1: Install from Bioconductor developer branch

# Switch to Bioconductor developer branch (requires latest version of R)
library(BiocInstaller)
useDevel()

# Download developer release
source("https://bioconductor.org/biocLite.R")
biocLite("LymphoSeq")

# Switch back to Bioconductor release branch
library(BiocInstaller)
useDevel()

Option 2: Install from GitHub

# Install the latest version of Bioconductor
source("https://bioconductor.org/biocLite.R")
biocLite()

# Download developer tools
install.packages("devtools")

# Download package from GitHub
devtools::install_github("davidcoffey/LymphoSeqDB")
devtools::install_github("davidcoffey/LymphoSeq")

Documentation

Citation

Coffey D (2019). LymphoSeq: Analyze high-throughput sequencing of T and B cell receptors. R package version 1.14.