From 2019e10418e9fc70692de4a395b23a4e8aafc90a Mon Sep 17 00:00:00 2001 From: Cornelius Roemer Date: Tue, 27 Aug 2024 09:03:27 +0200 Subject: [PATCH] Fix changelog for mpox/all-clades --- nextclade/resources/all-clades/CHANGELOG.md | 24 +++++++++++++++++++++ 1 file changed, 24 insertions(+) diff --git a/nextclade/resources/all-clades/CHANGELOG.md b/nextclade/resources/all-clades/CHANGELOG.md index 268a01b..4dafa82 100644 --- a/nextclade/resources/all-clades/CHANGELOG.md +++ b/nextclade/resources/all-clades/CHANGELOG.md @@ -1 +1,25 @@ ## Unreleased + +## TKTK + +- Clade Ia and clade Ib are now distinguished +- Sequences shared via Genbank since 2024 have been added + +## 2024-04-19T07:50:39Z + +- New hMPXV-1 lineages B.1.21, B.1.22, and C.1.1 are now included in the dataset. For more information on these lineages, see the [hMPXV-1 lineage definitions PR](https://github.com/mpxv-lineages/lineage-designation/pull/37) +- The sequences used in the reference trees have been updated to include the latest sequences available in Genbank as of 2024-04-16 + +## 2024-01-16T20:31:02Z + +Initial release of this dataset. This dataset is similar to the v2 dataset [`MPXV/ancestral`](https://github.com/nextstrain/nextclade_data/tree/2023-08-17--15-51-24--UTC/data/datasets/MPXV/references/ancestral/versions/2023-08-01T12%3A00%3A00Z/files) with some differences. + +### New and changed gene names + +Some genes have been renamed and one has been added. The new annotation is based on NCBI refseq annotations that were released in November 2022. The v2 dataset predates this refseq: + +- The 4 genes in the inverted terminal repeat segment (ITR) on both ends of the genome (OPG001, OPG002, OPG003,OPG015) are now all included. The genes on the 3' end (~positions 190000-197000) now have an `_dup` appended to distinguish them. +- The gene previously named `NBT03_gp052` is now called `OPG073` +- The gene previously named `NBT03_gp174` is now called `OPG016` +- The gene previously named `NBT03_gp175` is now called `OPG015_dup` +- Gene `OPG166` has been added