alphabetr
implements the ALPHABETR (algorithm for pairing alpha-beta T cell receptors) algorithms for obtaining TCR sequence pairs. This approach determines CDR3A/CDR3B pairs from high-throughput sequencing data from repeated samples of antigen-specific T cell populations.
With alphabetr, you can
- Determine CDR3A/CDR3B pairs
- Determine dual TCR-alpha clones and clones that share CDR3A or CDR3B sequences
- Estimate clonal frequencies
You can install by:
if (packageVersion("devtools") < 1.6) {
install.packages("devtools")
}
devtools::install_github("edwardslee/alphabetr")
If you encounter any bugs, please file an issue.