From f64737fe14f036e59ae3e64516db8d952f34f66c Mon Sep 17 00:00:00 2001 From: Andrew Rambaut Date: Thu, 3 Jun 2021 17:14:14 +0100 Subject: [PATCH] adding WHO labels --- constellations/definitions/cB.1.1.7.json | 2 +- constellations/definitions/cB.1.351.json | 2 +- constellations/definitions/cB.1.427_429.json | 27 +++++++++++++++++++ constellations/definitions/cB.1.525.json | 2 +- constellations/definitions/cB.1.526.json | 25 +++++++++++++++++ .../definitions/cB.1.617.2+K417N.json | 2 +- constellations/definitions/cB.1.617.2.json | 2 +- constellations/definitions/cP.1.json | 2 +- constellations/definitions/cP.2.json | 2 +- constellations/definitions/cP.3.json | 2 +- 10 files changed, 60 insertions(+), 8 deletions(-) create mode 100644 constellations/definitions/cB.1.427_429.json create mode 100644 constellations/definitions/cB.1.526.json diff --git a/constellations/definitions/cB.1.1.7.json b/constellations/definitions/cB.1.1.7.json index ac31cfb..f377830 100644 --- a/constellations/definitions/cB.1.1.7.json +++ b/constellations/definitions/cB.1.1.7.json @@ -1,5 +1,5 @@ { - "name": "B.1.1.7-like", + "name": "Alpha (B.1.1.7-like)", "description": "B.1.1.7 lineage defining mutations", "sources": [ "https://virological.org/t/563" diff --git a/constellations/definitions/cB.1.351.json b/constellations/definitions/cB.1.351.json index de9d9c6..543a43f 100644 --- a/constellations/definitions/cB.1.351.json +++ b/constellations/definitions/cB.1.351.json @@ -1,5 +1,5 @@ { - "label": "B.1.351-like", + "label": "Beta (B.1.351-like)", "description": "Defining of lineage B.1.351", "sources": [ "https://www.medrxiv.org/content/10.1101/2020.12.21.20248640v1" diff --git a/constellations/definitions/cB.1.427_429.json b/constellations/definitions/cB.1.427_429.json new file mode 100644 index 0000000..134959c --- /dev/null +++ b/constellations/definitions/cB.1.427_429.json @@ -0,0 +1,27 @@ +{ + "label": "Epsilon (B.1.427/429-like)", + "description": "", + "sources": [ + null + ], + "type": "variant", + "variant": { + "Pango-lineages": [ + "B.1.427", + "B.1.429" + ], + "WHO-label": "Epsilon", + "representative-genome": "" + }, + "tags": [ + "B.1.527", + "B.1.529", + "Eta" + ], + "sites": [ + ], + "rules": { + "min_alt": 5, + "max_ref": 16 + } +} \ No newline at end of file diff --git a/constellations/definitions/cB.1.525.json b/constellations/definitions/cB.1.525.json index 97ec1ce..782b70f 100644 --- a/constellations/definitions/cB.1.525.json +++ b/constellations/definitions/cB.1.525.json @@ -1,5 +1,5 @@ { - "label": "B.1.525-like", + "label": "Eta (B.1.525-like)", "description": "This variant is a cluster of E484K containing genomes", "sources": [ null diff --git a/constellations/definitions/cB.1.526.json b/constellations/definitions/cB.1.526.json new file mode 100644 index 0000000..ab22c5d --- /dev/null +++ b/constellations/definitions/cB.1.526.json @@ -0,0 +1,25 @@ +{ + "label": "Iota (B.1.526-like)", + "description": "", + "sources": [ + null + ], + "type": "variant", + "variant": { + "Pango-lineages": [ + "B.1.526" + ], + "WHO-label": "Eta", + "representative-genome": "" + }, + "tags": [ + "B.1.526", + "Eta" + ], + "sites": [ + ], + "rules": { + "min_alt": 5, + "max_ref": 16 + } +} \ No newline at end of file diff --git a/constellations/definitions/cB.1.617.2+K417N.json b/constellations/definitions/cB.1.617.2+K417N.json index 6d62687..74f1504 100644 --- a/constellations/definitions/cB.1.617.2+K417N.json +++ b/constellations/definitions/cB.1.617.2+K417N.json @@ -1,5 +1,5 @@ { - "label": "B.1.617.2-like+K417N", + "label": "Delta (B.1.617.2-like) +K417N", "description": "Defining constellation for lineage B.1.617.2 with the addition of spike K417N", "sources": [ "https://github.com/cov-lineages/pango-designation/issues/49" diff --git a/constellations/definitions/cB.1.617.2.json b/constellations/definitions/cB.1.617.2.json index 0aef954..f826666 100644 --- a/constellations/definitions/cB.1.617.2.json +++ b/constellations/definitions/cB.1.617.2.json @@ -1,5 +1,5 @@ { - "label": "B.1.617.2-like", + "label": "Delta (B.1.617.2-like)", "description": "Defining constellation for lineage B.1.617.2", "sources": [ "https://github.com/cov-lineages/pango-designation/issues/49" diff --git a/constellations/definitions/cP.1.json b/constellations/definitions/cP.1.json index 785fa4c..125df3b 100644 --- a/constellations/definitions/cP.1.json +++ b/constellations/definitions/cP.1.json @@ -1,5 +1,5 @@ { - "label": "P.1-like", + "label": "Gamma (P.1-like)", "description": "Defining constellation for lineage P.1", "sources": [ "https://virological.org/t/586", diff --git a/constellations/definitions/cP.2.json b/constellations/definitions/cP.2.json index 1b6c76d..a582b99 100644 --- a/constellations/definitions/cP.2.json +++ b/constellations/definitions/cP.2.json @@ -1,5 +1,5 @@ { - "label": "P.2-like", + "label": "Zeta (P.2-like)", "description": "Defining constellation for lineage P.2", "sources": [ null diff --git a/constellations/definitions/cP.3.json b/constellations/definitions/cP.3.json index f6fa0fd..0e772c1 100644 --- a/constellations/definitions/cP.3.json +++ b/constellations/definitions/cP.3.json @@ -1,5 +1,5 @@ { - "label": "P.3-like", + "label": "Theta (P.3-like)", "description": "Defining constellation for lineage P.3", "sources": [ "https://github.com/cov-lineages/pango-designation/issues/27",