SampleDb: Example human immune repertoire data

In tigger: Infers Novel Immunoglobulin Alleles from Sequencing Data

Example human immune repertoire data

Description

A data.frame of example V(D)J immunoglobulin sequences derived from a single individual (PGP1), sequenced on the Roche 454 platform, and assigned by IMGT/HighV-QUEST to IGHV1 family alleles.

Format

A data.frame where rows correspond to unique V(D)J sequences and columns include:

• "SEQUENCE_IMGT": IMGT-gapped V(D)J nucleotide sequence.

• "V_CALL": IMGT/HighV-QUEST V segment allele calls.

• "D_CALL": IMGT/HighV-QUEST D segment allele calls.

• "J_CALL": IMGT/HighV-QUEST J segment allele calls.

• "JUNCTION_LENGTH": Junction region length.

References

1. Gadala-Maria, et al. (2015) Automated analysis of high-throughput B cell sequencing data reveals a high frequency of novel immunoglobulin V gene segment alleles. PNAS. 112(8):E862-70.

See Also

See AIRRDb for an AIRR formatted version of SampleDb.

tigger documentation built on Oct. 10, 2023, 5:08 p.m.