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vidjil
vidjil
Commits
41096892
Commit
41096892
authored
Jan 30, 2017
by
Mikaël Salson
Committed by
Mathieu Giraud
Jan 30, 2017
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germline/: reindent *.g files
parent
94f44633
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207 additions
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213 deletions
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-213
germline/homo-sapiens.g
germline/homo-sapiens.g
+162
-166
germline/isotypes.g
germline/isotypes.g
+45
-47
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germline/homo-sapiens.g
View file @
41096892
{
"species": "Homo sapiens",
"species_taxon_id": 9606,
"systems": {
"TRA": {
"shortcut": "A",
"color" : "#268bd2",
"description": "Human T-cell receptor, alpha locus (14q11.2)",
"recombinations": [ {
"5": ["TRAV.fa"],
"3": ["TRAJ.fa"]
} ],
"parameters": {
"seed": "13s"
}
},
"systems": {
"TRB": {
"shortcut": "B",
"color" : "#cb4b16",
"description": "Human T-cell receptor, beta locus (7q34)",
"recombinations": [ {
"5": ["TRBV.fa"],
"4": ["TRBD.fa"],
"3": ["TRBJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
},
"TRB+": {
"shortcut": "b",
"color" : "#eb6b36",
"description": "Human T-cell receptor, beta locus (7q34), incomplete Db-Jb recombinations",
"follows": "TRB",
"recombinations": [ {
"5": ["TRBD_upstream.fa"],
"3": ["TRBJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
},
"TRG": {
"shortcut": "G",
"color" : "#dc322f",
"description": "Human T-cell receptor, gamma locus (7p14)",
"recombinations": [ {
"5": ["TRGV.fa"],
"3": ["TRGJ.fa"]
} ],
"parameters": {
"seed": "10s"
}
},
"TRA": {
"shortcut": "A",
"color" : "#268bd2",
"description": "Human T-cell receptor, alpha locus (14q11.2)",
"recombinations": [ {
"5": ["TRAV.fa"],
"3": ["TRAJ.fa"]
} ],
"parameters": {
"seed": "13s"
}
},
"TRD": {
"shortcut": "D",
"color" : "#b58900",
"description": "Human T-cell receptor, delta locus (14q11.2)",
"recombinations": [ {
"5": ["TRDV.fa"],
"4": ["TRDD.fa"],
"3": ["TRDJ.fa"]
} ],
"parameters": {
"seed": "10s"
}
},
"TRB": {
"shortcut": "B",
"color" : "#cb4b16",
"description": "Human T-cell receptor, beta locus (7q34)",
"recombinations": [ {
"5": ["TRBV.fa"],
"4": ["TRBD.fa"],
"3": ["TRBJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
},
"TRB+": {
"shortcut": "b",
"color" : "#eb6b36",
"description": "Human T-cell receptor, beta locus (7q34), incomplete Db-Jb recombinations",
"follows": "TRB",
"recombinations": [ {
"5": ["TRBD_upstream.fa"],
"3": ["TRBJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
},
"TRA+D": {
"shortcut": "a",
"color" : "#46abf2",
"description": "Human T-cell receptor, alpha/delta locus (14q11.2)",
"recombinations": [ {
"5": ["TRDV.fa"],
"4": ["TRDD.fa"],
"3": ["TRAJ.fa"]
}, {
"5": ["TRDD_upstream.fa"],
"3": ["TRAJ.fa"]
} ],
"parameters": {
"seed": "13s"
}
},
"TRG": {
"shortcut": "G",
"color" : "#dc322f",
"description": "Human T-cell receptor, gamma locus (7p14)",
"recombinations": [ {
"5": ["TRGV.fa"],
"3": ["TRGJ.fa"]
} ],
"parameters": {
"seed": "10s"
}
},
"TRD+": {
"shortcut": "d",
"color" : "#d5a920",
"description": "Human T-cell receptor, delta locus (14q11.2), incomplete Dd2-Dd3 recombinations",
"follows": "TRD",
"recombinations": [ {
"5": ["TRDV.fa"],
"3": ["TRDD3_downstream.fa"]
}, {
"5": ["TRDD2_upstream.fa"],
"4": ["TRDD.fa"],
"3": ["TRDJ.fa"]
}, {
"5": ["TRDD2_upstream.fa"],
"3": ["TRDD3_downstream.fa"]
} ],
"parameters": {
"seed": "9s"
}
},
"TRD": {
"shortcut": "D",
"color" : "#b58900",
"description": "Human T-cell receptor, delta locus (14q11.2)",
"recombinations": [ {
"5": ["TRDV.fa"],
"4": ["TRDD.fa"],
"3": ["TRDJ.fa"]
} ],
"parameters": {
"seed": "10s"
}
},
"TRA+D": {
"shortcut": "a",
"color" : "#46abf2",
"description": "Human T-cell receptor, alpha/delta locus (14q11.2)",
"recombinations": [ {
"5": ["TRDV.fa"],
"4": ["TRDD.fa"],
"3": ["TRAJ.fa"]
}, {
"5": ["TRDD_upstream.fa"],
"3": ["TRAJ.fa"]
} ],
"parameters": {
"seed": "13s"
}
},
"TRD+": {
"shortcut": "d",
"color" : "#d5a920",
"description": "Human T-cell receptor, delta locus (14q11.2), incomplete Dd2-Dd3 recombinations",
"follows": "TRD",
"recombinations": [ {
"5": ["TRDV.fa"],
"3": ["TRDD3_downstream.fa"]
}, {
"5": ["TRDD2_upstream.fa"],
"4": ["TRDD.fa"],
"3": ["TRDJ.fa"]
}, {
"5": ["TRDD2_upstream.fa"],
"3": ["TRDD3_downstream.fa"]
} ],
"parameters": {
"seed": "9s"
}
},
"IGH": {
"shortcut": "H",
"color" : "#6c71c4",
"description": "Human immunoglobulin, heavy locus (14q32.33)",
"recombinations": [ {
"5": ["IGHV.fa"],
"4": ["IGHD.fa"],
"3": ["IGHJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
},
"IGH+": {
"shortcut": "h",
"color" : "#8c91e4",
"description": "Human immunoglobulin, heavy locus (14q32.33), incomplete Dh-Jh recombinations",
"follows": "IGH",
"recombinations": [ {
"5": ["IGHD_upstream.fa"],
"3": ["IGHJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
},
"IGH": {
"shortcut": "H",
"color" : "#6c71c4",
"description": "Human immunoglobulin, heavy locus (14q32.33)",
"recombinations": [ {
"5": ["IGHV.fa"],
"4": ["IGHD.fa"],
"3": ["IGHJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
},
"IGH+": {
"shortcut": "h",
"color" : "#8c91e4",
"description": "Human immunoglobulin, heavy locus (14q32.33), incomplete Dh-Jh recombinations",
"follows": "IGH",
"recombinations": [ {
"5": ["IGHD_upstream.fa"],
"3": ["IGHJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
},
"IGK": {
"shortcut": "K",
"color" : "#2aa198",
"description": "Human immunoglobulin, kappa locus (2p11.2)",
"recombinations": [ {
"5": ["IGKV.fa"],
"3": ["IGKJ.fa"]
} ],
"parameters": {
"seed": "10s"
}
},
"IGK+": {
"shortcut": "k",
"color" : "#4ac1a8",
"description": "Human immunoglobulin, kappa locus (2p11.2), Vk-KDE and Intron-KDE recombinations",
"follows": "IGK",
"recombinations": [ {
"5": ["IGKV.fa", "IGK-INTRON.fa"],
"3": ["IGK-KDE.fa"]
} ],
"parameters": {
"seed": "10s"
}
},
"IGK": {
"shortcut": "K",
"color" : "#2aa198",
"description": "Human immunoglobulin, kappa locus (2p11.2)",
"recombinations": [ {
"5": ["IGKV.fa"],
"3": ["IGKJ.fa"]
} ],
"parameters": {
"seed": "10s"
}
},
"IGK+": {
"shortcut": "k",
"color" : "#4ac1a8",
"description": "Human immunoglobulin, kappa locus (2p11.2), Vk-KDE and Intron-KDE recombinations",
"follows": "IGK",
"recombinations": [ {
"5": ["IGKV.fa", "IGK-INTRON.fa"],
"3": ["IGK-KDE.fa"]
} ],
"parameters": {
"seed": "10s"
}
},
"IGL": {
"shortcut": "L",
"color" : "#d33682",
"description": "Human immunoglobulin, lambda locus (22q11.2)",
"recombinations": [ {
"5": ["IGLV.fa"],
"3": ["IGLJ.fa"]
} ],
"parameters": {
"seed": "10s"
"IGL": {
"shortcut": "L",
"color" : "#d33682",
"description": "Human immunoglobulin, lambda locus (22q11.2)",
"recombinations": [ {
"5": ["IGLV.fa"],
"3": ["IGLJ.fa"]
} ],
"parameters": {
"seed": "10s"
}
}
}
}
}
germline/isotypes.g
View file @
41096892
{
"species": "Homo sapiens",
"species_taxon_id": 9606,
"systems": {
"IgVC": {
"shortcut": "C",
"color" : "#6c71c4",
"description": "Human immunoglobulin, heavy locus (14q32.33), with constant heavy chains",
"recombinations": [ {
"5": ["IGHV.fa"],
"4": ["IGHJ.fa"],
"3": ["IGHC=M.fa",
"IGHC=D.fa",
"IGHC=G3.fa",
"IGHC=G1.fa",
"IGHC=A1.fa",
"IGHC=G2.fa",
"IGHC=G4.fa",
"IGHC=E.fa",
"IGHC=A2.fa",
"IGHC=GP.fa"
]
} ],
"parameters": {
"seed": "12s"
}
},
"IgVC": {
"shortcut": "C",
"color" : "#6c71c4",
"description": "Human immunoglobulin, heavy locus (14q32.33), with constant heavy chains",
"recombinations": [ {
"5": ["IGHV.fa"],
"4": ["IGHJ.fa"],
"3": ["IGHC=M.fa",
"IGHC=D.fa",
"IGHC=G3.fa",
"IGHC=G1.fa",
"IGHC=A1.fa",
"IGHC=G2.fa",
"IGHC=G4.fa",
"IGHC=E.fa",
"IGHC=A2.fa",
"IGHC=GP.fa"
]
} ],
"parameters": {
"seed": "12s"
}
},
"IgJC": {
"shortcut": "c",
"color" : "#8c91e4",
"description": "Human immunoglobulin, heavy locus (14q32.33), with constant heavy chains",
"recombinations": [ {
"5": ["IGHJ.fa"],
"3": ["IGHC=M.fa",
"IGHC=D.fa",
"IGHC=G3.fa",
"IGHC=G1.fa",
"IGHC=A1.fa",
"IGHC=G2.fa",
"IGHC=G4.fa",
"IGHC=E.fa",
"IGHC=A2.fa",
"IGHC=GP.fa"
]
} ],
"parameters": {
"seed": "12s"
"IgJC": {
"shortcut": "c",
"color" : "#8c91e4",
"description": "Human immunoglobulin, heavy locus (14q32.33), with constant heavy chains",
"recombinations": [ {
"5": ["IGHJ.fa"],
"3": ["IGHC=M.fa",
"IGHC=D.fa",
"IGHC=G3.fa",
"IGHC=G1.fa",
"IGHC=A1.fa",
"IGHC=G2.fa",
"IGHC=G4.fa",
"IGHC=E.fa",
"IGHC=A2.fa",
"IGHC=GP.fa"
]
} ],
"parameters": {
"seed": "12s"
}
}
}
}
}
}
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