tcR (version 2.2.4)

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
HUMAN_TRAJ
HUMAN_TRBV
HUMAN_TRBD
HUMAN_TRBJ
HUMAN_TRBV_MITCR
HUMAN_TRBV_ALS
HUMAN_TRGV
HUMAN_TRGJ
HUMAN_TRDV
HUMAN_TRDD
HUMAN_TRDJ
MOUSE_TRBV
MOUSE_TRBJ
MOUSE_TRAV
MOUSE_TRAJ
MOUSE_IGKV
MOUSE_IGKJ
MOUSE_IGHV
MOUSE_IGHD
MOUSE_IGHJ
MACMUL_TRBV
MACMUL_TRBJ
HUMAN_IGHV
HUMAN_IGHD
HUMAN_IGHJ
HUMAN_IGLV
HUMAN_IGLJ
MOUSE_IGLJ
MOUSE_IGLV

Format

Each <SPECIES>_<GENES> is a character vector. <SPECIES> is an identifier of species, <GENES> 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

# NOT RUN {
HUMAN_TRBV[1]  #  => "TRBV10-1"
# }