ExampleDb - Example AIRR database
Description¶
A small example database subset from Laserson and Vigneault et al, 2014.
Usage¶
ExampleDb
Format¶
A data.frame with the following AIRR style columns:
sequence_id: Sequence identifiersequence_alignment: IMGT-gapped observed sequence.germline_alignment: IMGT-gapped germline sequence.germline_alignment_d_mask: IMGT-gapped germline sequence with N, P and D regions masked.v_call: V region allele assignments.v_call_genotyped: TIgGER corrected V region allele assignment.d_call: D region allele assignments.j_call: J region allele assignments.c_call: Isotype (C region) assignment.junction: Junction region sequence.junction_length: Length of the junction region in nucleotides.np1_length: Combined length of the N and P regions proximal to the V region.np2_length: Combined length of the N and P regions proximal to the J region.duplicate_count: Copy count (number of duplicates) of the sequence.clone_id: Change-O assignment clonal group identifier.sample_id: Sample identifier. Time in relation to vaccination.
References¶
- Laserson U and Vigneault F, et al. High-resolution antibody dynamics of vaccine-induced immune responses. Proc Natl Acad Sci USA. 2014 111:4928-33.