pangolin-assignment v1.30

Assignment cache from pango-designation v1.30 on GISAID sequences downloaded through 2024-09-19

The cache was computed at UCSC on sequences downloaded from GISAID, using pangolin with the --skip-scorpio flag and --usher-tree <v1.30 lineageTree.pb> file prior to v1.30 release.

pangolin: 4.3.1
usher 0.6.3
gofasta 1.2.1
minimap2 2.26-r1175
faToVcf: 448

pangolin-assignment v1.29

Assignment cache from pango-designation v1.29 on GISAID sequences downloaded through 2024-07-26

The cache was computed at UCSC on sequences downloaded from GISAID, using pangolin with the --skip-scorpio flag and --usher-tree <v1.29 lineageTree.pb> file prior to v1.29 release.

pangolin: 4.3.1
usher 0.6.3
gofasta 1.2.1
minimap2 2.26-r1175
faToVcf: 448

pangolin-assignment v1.28.1

Assignment cache from pango-designation v1.28 on GISAID sequences downloaded through 2024-07-01, rebuilt for pangolin-data and pangolin-assignment release v1.28.1 (minor release to fix accidental inclusion of KR.2, see cov-lineages/pangolin-data#60).

The cache was computed at UCSC on sequences downloaded from GISAID, using pangolin with the --skip-scorpio flag and --usher-tree <v1.28.1 lineageTree.pb> file prior to v1.28.1 release.

pangolin: 4.3.1
usher 0.6.3
gofasta 1.2.1
minimap2 2.26-r1175
faToVcf: 448

pangolin-assignment v1.28

Assignment cache from pango-designation v1.28 on GISAID sequences downloaded through 2024-06-21

The cache was computed at UCSC on sequences downloaded from GISAID, using pangolin with the --skip-scorpio flag and --usher-tree <v1.28 lineageTree.pb> file prior to v1.28 release.

pangolin: 4.3.1
usher 0.6.3
gofasta 1.2.1
minimap2 2.26-r1175
faToVcf: 448

pangolin-assignment v1.27

Assignment cache from pango-designation v1.27 on GISAID sequences downloaded through 2024-04-24

The cache was computed at UCSC on sequences downloaded from GISAID, using pangolin with the --skip-scorpio flag and --usher-tree <v1.27 lineageTree.pb> file prior to v1.27 release.

pangolin: 4.3.1
usher 0.6.3
gofasta 1.2.1
minimap2 2.26-r1175
faToVcf: 448

pangolin-assignment v1.26

Assignment cache from pango-designation v1.26 on GISAID sequences downloaded through 2024-03-08

The cache was computed at UCSC on sequences downloaded from GISAID, using pangolin with the --skip-scorpio flag and --usher-tree <v1.26 lineageTree.pb> file prior to v1.26 release.

pangolin: 4.3.1
usher 0.6.3
gofasta 1.2.1
minimap2 2.26-r1175
faToVcf: 448

pangolin-assignment v1.25.1

Assignment cache from pango-designation v1.25 on GISAID sequences downloaded through 2024-02-09, rebuilt for pangolin-data and pangolin-assignment release v1.25.1. [No change to assignments, just re-gzipped; bumping version to stay in sync with pangolin-data.]

pangolin-assignment v1.25

Assignment cache from pango-designation v1.25 on GISAID sequences downloaded through 2024-02-09

The cache was computed at UCSC on sequences downloaded from GISAID, using pangolin with the --skip-scorpio flag and --usher-tree <v1.25 lineageTree.pb> file prior to v1.25 release.

pangolin: 4.3.1
usher 0.6.3
gofasta 1.2.1
minimap2 2.26-r1175
faToVcf: 448

pangolin-assignment v1.24

Assignment cache from pango-designation v1.24 on GISAID sequences downloaded through 2024-01-19

The cache was computed at UCSC on sequences downloaded from GISAID, using pangolin with the --skip-scorpio flag and --usher-tree <v1.24 lineageTree.pb> file prior to v1.24 release.

pangolin: 4.3.1
usher 0.6.3
gofasta 1.2.0
minimap2 2.24-r1122
faToVcf: 448

pangolin-assignment v1.23.1

pangolin-data v1.23.1 minor release adds JQ to alias_key.json, which has no effect on the cached lineage assignments; pangolin-data's alias_key.json is used only for comparison of inference lineage (from usher) with scorpio assignment.