Name Mode Size
R 040000
inst 040000
man 040000
vignettes 040000
.Rbuildignore 100644 0 kb
.gitignore 100644 0 kb
DESCRIPTION 100644 1 kb
LymphoSeq.Rproj 100644 0 kb
NAMESPACE 100644 2 kb
README.md 100644 2 kb
README.md
# 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](http://www.adaptivebiotech.com/immunoseq). ### Installation instructions #### Install release version 1.4 ###### Install from [Bioconductor](https://www.bioconductor.org/packages/LymphoSeq) ``` if (!requireNamespace("BiocManager", quietly=TRUE)) install.packages("BiocManager") BiocManager::install("LymphoSeq") ``` #### Install developer version 1.5 ###### Option 1: Install from [Bioconductor developer branch](https://www.bioconductor.org/developers/how-to/useDevel/) ``` # Switch to Bioconductor developer branch (requires latest version of R) library(BiocManager) BiocManager::install(version = "devel") # Download developer release if (!requireNamespace("BiocManager", quietly=TRUE)) install.packages("BiocManager") BiocManager::install("LymphoSeq") ``` ###### Option 2: Install from GitHub ``` # Install the latest version of Bioconductor if (!requireNamespace("BiocManager", quietly=TRUE)) install.packages("BiocManager") BiocManager::install() # Download developer tools install.packages("devtools") # Download package from GitHub devtools::install_github("davidcoffey/LymphoSeqDB") devtools::install_github("davidcoffey/LymphoSeq") ``` ### Documentation * [LymphoSeq vignette](http://bioconductor.org/packages/release/bioc/vignettes/LymphoSeq/inst/doc/LymphoSeq.html) * [LymphoSeq manual](https://bioconductor.org/packages/release/bioc/manuals/LymphoSeq/man/LymphoSeq.pdf) * [LymphoSeq news](https://bioconductor.org/packages/release/bioc/news/LymphoSeq/NEWS) ### Citation Coffey D (2017). LymphoSeq: Analyze high-throughput sequencing of T and B cell receptors. R package version 1.4.