tcR (version 1.3)

segments.alphabets: Alphabets of TCR and Ig gene segments.

Description

Character vector with names for segments. With tcR we provided alphabets for all alpha, beta, gamma and delta chains gene segments.

Usage

HUMAN_TRAV_ALPHABET
HUMAN_TRAJ_ALPHABET
HUMAN_TRBV_ALPHABET
HUMAN_TRBD_ALPHABET
HUMAN_TRBJ_ALPHABET
HUMAN_TRBV_ALPHABET_MITCR
HUMAN_TRGV_ALPHABET
HUMAN_TRGJ_ALPHABET
HUMAN_TRDV_ALPHABET
HUMAN_TRDD_ALPHABET
HUMAN_TRDJ_ALPHABET

format

Each __ALPHABET is a character vector. is an identifier of species, is concatenated three identifiers of cell type ("TR**" for TCR, "IG**" for Ig), chain (e.g., "**A*" for alpha chains) and gene segment ("***V" for V(ariable) gene segment, "***J" for J(oining) gene segment, "***D" for D(iversity) gene segment).

Examples

HUMAN_TRBV_ALPHABET[1]  #  => "TRBV10-1"