Chovanec, P., Bolland, D.J., Matheson, L.S., Wood, A.L., Corcoran, A.E. (2018). Unbiased quantification of immunoglobulin diversity at the DNA level with VDJ-seq. Nat. Protoc. 13, 1232–1252.
The R notebook contains R, BASH and python code to reproduce all the analysis starting from fasta (Kaplinsky et al.) or xlxs (Lin et al.) result files. VDJ-seq data available at: GSE106458.
- Kaplinsky, J. et al. Antibody repertoire deep sequencing reveals antigen-independent selection in maturing B cells. Proc. Natl. Acad. Sci. 111, E2622–E2629 (2014).
- Lin, S. G. et al. Highly sensitive and unbiased approach for elucidating antibody repertoires. Proc. Natl. Acad. Sci. 113, 7846–7851 (2016).