From 394df485e27d49fb3acaadf475d988e1a94fc1c9 Mon Sep 17 00:00:00 2001 From: Jover Lee Date: Thu, 15 Aug 2024 13:44:20 -0700 Subject: [PATCH 1/2] phylogenetic: Update clade I in clades.tsv Copied the mutations used in the Nextclade dataset --- phylogenetic/defaults/clades.tsv | 11 +++++++---- 1 file changed, 7 insertions(+), 4 deletions(-) diff --git a/phylogenetic/defaults/clades.tsv b/phylogenetic/defaults/clades.tsv index 61ffa50..8ae5c3c 100644 --- a/phylogenetic/defaults/clades.tsv +++ b/phylogenetic/defaults/clades.tsv @@ -2,11 +2,14 @@ clade gene site alt outgroup nuc 179226 T -clade I nuc 87560 T -clade I nuc 136015 A +clade I nuc 86502 T +clade I nuc 133368 A -clade Ib nuc 6014 G -clade Ib nuc 108966 T +clade Ia clade clade I +clade Ia nuc 35352 A + +clade Ib clade clade I +clade Ib nuc 19455 T clade II nuc 86502 G clade II nuc 150970 A From 59b3edf5f90fcf59a08f70459674380bdb2e352e Mon Sep 17 00:00:00 2001 From: Jover Lee Date: Thu, 15 Aug 2024 13:46:35 -0700 Subject: [PATCH 2/2] phylogenetic: Update clades.tsv Resolving additional differences I noticed between this clades.tsv and the nextclade clades.tsv --- phylogenetic/defaults/clades.tsv | 2 ++ 1 file changed, 2 insertions(+) diff --git a/phylogenetic/defaults/clades.tsv b/phylogenetic/defaults/clades.tsv index 8ae5c3c..a8a5c3f 100644 --- a/phylogenetic/defaults/clades.tsv +++ b/phylogenetic/defaults/clades.tsv @@ -31,10 +31,12 @@ A.2 nuc 34472 T A.2.1 clade A.2 A.2.1 nuc 25072 T A.2.1 nuc 140492 C +A.2.1 nuc 179537 T A.2.2 clade A.2 A.2.2 nuc 21991 A A.2.2 nuc 103019 T +A.2.2 nuc 158424 A A.2.3 clade A.2 A.2.3 nuc 57284 T