Commit 5f842de4 authored by Mathieu Giraud's avatar Mathieu Giraud

germlines.data: encapsulate 5/4/3 fields into "recombinations"

Suggested by @mikael-s.
parent 5f8b5495
......@@ -4,8 +4,10 @@ germline_data = {
"shortcut": "A",
"color" : "#268bd2",
"description": "Human T-cell receptor, alpha locus (14q11.2)",
"5": ["TRAV.fa"],
"3": ["TRAJ.fa"],
"recombinations": [ {
"5": ["TRAV.fa"],
"3": ["TRAJ.fa"]
} ],
"parameters": {
"seed": "13s"
}
......@@ -15,9 +17,11 @@ germline_data = {
"shortcut": "B",
"color" : "#cb4b16",
"description": "Human T-cell receptor, beta locus (7q34)",
"5": ["TRBV.fa"],
"4": ["TRBD.fa"],
"3": ["TRBJ.fa"],
"recombinations": [ {
"5": ["TRBV.fa"],
"4": ["TRBD.fa"],
"3": ["TRBJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
......@@ -27,8 +31,10 @@ germline_data = {
"shortcut": "G",
"color" : "#dc322f",
"description": "Human T-cell receptor, gamma locus (7p14)",
"5": ["TRGV.fa"],
"3": ["TRGJ.fa"],
"recombinations": [ {
"5": ["TRGV.fa"],
"3": ["TRGJ.fa"]
} ],
"parameters": {
"seed": "10s"
}
......@@ -38,9 +44,11 @@ germline_data = {
"shortcut": "D",
"color" : "#b58900",
"description": "Human T-cell receptor, delta locus (14q11.2)",
"5": ["TRDV.fa"],
"4": ["TRDD.fa"],
"3": ["TRDJ.fa"],
"recombinations": [ {
"5": ["TRDV.fa"],
"4": ["TRDD.fa"],
"3": ["TRDJ.fa"]
} ],
"parameters": {
"seed": "10s"
}
......@@ -50,9 +58,11 @@ germline_data = {
"shortcut": "a",
"color" : "#46abf2",
"description": "Human T-cell receptor, alpha/delta locus (14q11.2)",
"5": ["TRDV.fa", "TRDD_upstream.fa"],
"4": ["TRDD.fa"],
"3": ["TRAJ.fa"],
"recombinations": [ {
"5": ["TRDV.fa", "TRDD_upstream.fa"],
"4": ["TRDD.fa"],
"3": ["TRAJ.fa"]
} ],
"parameters": {
"seed": "13s"
}
......@@ -63,17 +73,21 @@ germline_data = {
"color" : "#d5a920",
"description": "Human T-cell receptor, delta locus (14q11.2), incomplete Dd2-Dd3 rearrangements",
"follows": "TRD",
"5": ["TRDV.fa", "TRDD2_upstream.fa"],
"3": ["TRDJ.fa", "TRDD3_downstream.fa"]
"recombinations": [ {
"5": ["TRDV.fa", "TRDD2_upstream.fa"],
"3": ["TRDJ.fa", "TRDD3_downstream.fa"]
} ]
},
"IGH": {
"shortcut": "H",
"color" : "#6c71c4",
"description": "Human immunoglobulin, heavy locus (14q32.33)",
"5": ["IGHV.fa"],
"4": ["IGHD.fa"],
"3": ["IGHJ.fa"],
"recombinations": [ {
"5": ["IGHV.fa"],
"4": ["IGHD.fa"],
"3": ["IGHJ.fa"]
} ],
"parameters": {
"seed": "12s"
}
......@@ -83,16 +97,21 @@ germline_data = {
"color" : "#8c91e4",
"description": "Human immunoglobulin, heavy locus (14q32.33), incomplete DH-JH rearrangements",
"follows": "IGH",
"5": ["IGHD_upstream.fa"],
"3": ["IGHJ.fa"]
"recombinations": [ {
"5": ["IGHD_upstream.fa"],
"3": ["IGHJ.fa"]
} ],
}
},
"IGK": {
"shortcut": "K",
"color" : "#2aa198",
"description": "Human immunoglobulin, kappa locus (2p11.2)",
"5": ["IGKV.fa"],
"3": ["IGKJ.fa"],
"recombinations": [ {
"5": ["IGKV.fa"],
"3": ["IGKJ.fa"]
} ],
"parameters": {
"seed": "11s"
}
......@@ -102,16 +121,20 @@ germline_data = {
"color" : "#4ac1a8",
"description": "Human immunoglobulin, kappa locus (2p11.2), Vk-KDE and Intron-KDE rearrangements",
"follows": "IGK",
"5": ["IGKV.fa", "IGK-INTRON.fa"],
"3": ["IGK-KDE.fa"]
"recombinations": [ {
"5": ["IGKV.fa", "IGK-INTRON.fa"],
"3": ["IGK-KDE.fa"]
} ],
},
"IGL": {
"shortcut": "L",
"color" : "#d33682",
"description": "Human immunoglobulin, lambda locus (22q11.2)",
"5": ["IGLV.fa"],
"3": ["IGLJ.fa"],
"recombinations": [ {
"5": ["IGLV.fa"],
"3": ["IGLJ.fa"]
} ],
"parameters": {
"seed": "11s"
}
......
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