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New trees for new Nextstrain clades #234

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Oct 16, 2024
Merged

New trees for new Nextstrain clades #234

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e12a7f1
New trees for new Nextstrain clades
corneliusroemer Oct 15, 2024
cadb5f2
chore: rebuild [skip ci]
nextstrain-bot Oct 15, 2024
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15 changes: 15 additions & 0 deletions data/nextstrain/sars-cov-2/BA.2.86/CHANGELOG.md
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Original file line number Diff line number Diff line change
@@ -1,3 +1,18 @@
## Unreleased

- Add newly designated Nextstrain clades 24F (XEC) and 24G (KP.2.3)
- Add all 4 Pango lineages designated between 2024-09-26 and 2024-10-14. Unfold below to see a list of all newly included lineages with their designation dates:

<details>
<summary> Newly included lineages, with designation date in parentheses</summary>

- XEH (2024-09-28)
- XEJ (2024-09-28)
- XEC.2 (2024-09-28)
- XEK (2024-09-28)

</details>

## 2024-09-25T21:50:30Z

- Include newly designated Nextstrain clades 24D (XDV.1) and 24E (KP.3.1.1)
Expand Down
2 changes: 1 addition & 1 deletion data/nextstrain/sars-cov-2/BA.2.86/tree.json
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15 changes: 15 additions & 0 deletions data/nextstrain/sars-cov-2/BA.2/CHANGELOG.md
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Original file line number Diff line number Diff line change
@@ -1,3 +1,18 @@
## Unreleased

- Add newly designated Nextstrain clades 24F (XEC) and 24G (KP.2.3)
- Add all 4 Pango lineages designated between 2024-09-26 and 2024-10-14. Unfold below to see a list of all newly included lineages with their designation dates:

<details>
<summary> Newly included lineages, with designation date in parentheses</summary>

- XEH (2024-09-28)
- XEJ (2024-09-28)
- XEC.2 (2024-09-28)
- XEK (2024-09-28)

</details>

## 2024-09-25T21:50:30Z

- Include newly designated Nextstrain clades 24D (XDV.1) and 24E (KP.3.1.1)
Expand Down
2 changes: 1 addition & 1 deletion data/nextstrain/sars-cov-2/BA.2/tree.json
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15 changes: 15 additions & 0 deletions data/nextstrain/sars-cov-2/XBB/CHANGELOG.md
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Original file line number Diff line number Diff line change
@@ -1,3 +1,18 @@
## Unreleased

- Add newly designated Nextstrain clades 24F (XEC) and 24G (KP.2.3)
- Add all 4 Pango lineages designated between 2024-09-26 and 2024-10-14. Unfold below to see a list of all newly included lineages with their designation dates:

<details>
<summary> Newly included lineages, with designation date in parentheses</summary>

- XEH (2024-09-28)
- XEJ (2024-09-28)
- XEC.2 (2024-09-28)
- XEK (2024-09-28)

</details>

## 2024-09-25T21:50:30Z

- Include newly designated Nextstrain clades 24D (XDV.1) and 24E (KP.3.1.1)
Expand Down
2 changes: 1 addition & 1 deletion data/nextstrain/sars-cov-2/XBB/tree.json
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15 changes: 15 additions & 0 deletions data/nextstrain/sars-cov-2/wuhan-hu-1/orfs/CHANGELOG.md
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Original file line number Diff line number Diff line change
@@ -1,3 +1,18 @@
## Unreleased

- Add newly designated Nextstrain clades 24F (XEC) and 24G (KP.2.3)
- Add all 4 Pango lineages designated between 2024-09-26 and 2024-10-14. Unfold below to see a list of all newly included lineages with their designation dates:

<details>
<summary> Newly included lineages, with designation date in parentheses</summary>

- XEH (2024-09-28)
- XEJ (2024-09-28)
- XEC.2 (2024-09-28)
- XEK (2024-09-28)

</details>

## 2024-09-25T21:50:30Z

- Include newly designated Nextstrain clades 24D (XDV.1) and 24E (KP.3.1.1)
Expand Down
2 changes: 1 addition & 1 deletion data/nextstrain/sars-cov-2/wuhan-hu-1/orfs/tree.json
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15 changes: 15 additions & 0 deletions data/nextstrain/sars-cov-2/wuhan-hu-1/proteins/CHANGELOG.md
View file
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Original file line number Diff line number Diff line change
@@ -1,3 +1,18 @@
## Unreleased

- Add newly designated Nextstrain clades 24F (XEC) and 24G (KP.2.3)
- Add all 4 Pango lineages designated between 2024-09-26 and 2024-10-14. Unfold below to see a list of all newly included lineages with their designation dates:

<details>
<summary> Newly included lineages, with designation date in parentheses</summary>

- XEH (2024-09-28)
- XEJ (2024-09-28)
- XEC.2 (2024-09-28)
- XEK (2024-09-28)

</details>

## 2024-09-25T21:50:30Z

- Include newly designated Nextstrain clades 24D (XDV.1) and 24E (KP.3.1.1)
Expand Down
2 changes: 1 addition & 1 deletion data/nextstrain/sars-cov-2/wuhan-hu-1/proteins/tree.json
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100 changes: 65 additions & 35 deletions data_output/index.json
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Original file line number Diff line number Diff line change
Expand Up @@ -71,13 +71,13 @@
"treeJson": "tree.json"
},
"capabilities": {
"clades": 46,
"clades": 48,
"customClades": {
"Nextclade_pango": 3331,
"partiallyAliased": 3331,
"clade_nextstrain": 46,
"Nextclade_pango": 3335,
"partiallyAliased": 3335,
"clade_nextstrain": 48,
"clade_who": 13,
"clade_display": 46
"clade_display": 48
},
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"qc": [
"frameShifts",
Expand All @@ -92,6 +92,13 @@
]
},
"versions": [
{
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
}
},
{
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
Expand Down Expand Up @@ -158,8 +165,7 @@
}
],
"version": {
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
Expand Down Expand Up @@ -208,13 +214,13 @@
"treeJson": "tree.json"
},
"capabilities": {
"clades": 46,
"clades": 48,
"customClades": {
"Nextclade_pango": 3331,
"partiallyAliased": 3331,
"clade_nextstrain": 46,
"Nextclade_pango": 3335,
"partiallyAliased": 3335,
"clade_nextstrain": 48,
"clade_who": 13,
"clade_display": 46
"clade_display": 48
},
"qc": [
"frameShifts",
Expand All @@ -229,6 +235,13 @@
]
},
"versions": [
{
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
}
},
{
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
Expand Down Expand Up @@ -295,8 +308,7 @@
}
],
"version": {
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
Expand Down Expand Up @@ -347,13 +359,13 @@
"treeJson": "tree.json"
},
"capabilities": {
"clades": 23,
"clades": 25,
"customClades": {
"Nextclade_pango": 2594,
"partiallyAliased": 2594,
"clade_nextstrain": 23,
"Nextclade_pango": 2598,
"partiallyAliased": 2598,
"clade_nextstrain": 25,
"clade_who": 3,
"clade_display": 23
"clade_display": 25
},
"qc": [
"frameShifts",
Expand All @@ -369,6 +381,13 @@
]
},
"versions": [
{
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
}
},
{
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
Expand Down Expand Up @@ -435,8 +454,7 @@
}
],
"version": {
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
Expand Down Expand Up @@ -484,13 +502,13 @@
"treeJson": "tree.json"
},
"capabilities": {
"clades": 23,
"clades": 25,
"customClades": {
"Nextclade_pango": 2594,
"partiallyAliased": 2594,
"clade_nextstrain": 23,
"Nextclade_pango": 2598,
"partiallyAliased": 2598,
"clade_nextstrain": 25,
"clade_who": 3,
"clade_display": 23
"clade_display": 25
},
"qc": [
"frameShifts",
Expand All @@ -506,6 +524,13 @@
]
},
"versions": [
{
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
}
},
{
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
Expand Down Expand Up @@ -572,8 +597,7 @@
}
],
"version": {
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
Expand Down Expand Up @@ -621,13 +645,13 @@
"treeJson": "tree.json"
},
"capabilities": {
"clades": 23,
"clades": 25,
"customClades": {
"Nextclade_pango": 2594,
"partiallyAliased": 2594,
"clade_nextstrain": 23,
"Nextclade_pango": 2598,
"partiallyAliased": 2598,
"clade_nextstrain": 25,
"clade_who": 3,
"clade_display": 23
"clade_display": 25
},
"qc": [
"frameShifts",
Expand All @@ -643,6 +667,13 @@
]
},
"versions": [
{
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
}
},
{
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
Expand Down Expand Up @@ -709,8 +740,7 @@
}
],
"version": {
"updatedAt": "2024-09-25T21:50:30Z",
"tag": "2024-09-25--21-50-30Z",
"tag": "unreleased",
"compatibility": {
"cli": "3.0.0-alpha.0",
"web": "3.0.0-alpha.0"
Expand Down
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