cov-lineages/pango-designation issues and pull requests

#99 - Most B.6.7 representatives have A24389C and G24390C, associated with untrimmed nanopore adapter seq

Issue - State: closed - Opened by AngieHinrichs over 3 years ago - 2 comments
Labels: correction

#98 - more representative sequences for B.1.617.1, B.1.617.2, B.1.617.3

Pull Request - State: closed - Opened by AngieHinrichs over 3 years ago

#97 - Remove a duplicated line & three conflicts from lineages.csv

Pull Request - State: closed - Opened by AngieHinrichs over 3 years ago

#96 - Emilia Romagna Lineage

Issue - State: closed - Opened by gdirani over 3 years ago - 1 comment
Labels: not accepted

#95 - B.1.617.2 sublineage with K417N

Issue - State: closed - Opened by rambaut over 3 years ago - 6 comments
Labels: designated

#94 - Potential new B.1.400 lineage with E484K in USA/UT

Issue - State: closed - Opened by erinyoung over 3 years ago - 5 comments
Labels: designated

#93 - Proposal of B.1 sublineage with Spike substitutions N440K and E484K and 69/70 deletions, among others

Issue - State: closed - Opened by ha-ruiz75 over 3 years ago - 5 comments
Labels: designated

#92 - New lineage proposal Sub-lineage of: B.1.1.7 that is exclusive to USA, with spike protein D178H and membrane protein V70L mutations

Issue - State: closed - Opened by ShenLishuang over 3 years ago - 3 comments
Labels: designated

#91 - New lineage proposal of SARS-CoV-2 strains having D614G, P681H and V1230L mutations in S glycoprotein

Issue - State: closed - Opened by 08011990 over 3 years ago - 6 comments
Labels: designated

#90 - New sub-lineage of C.36 with S:L452R

Issue - State: closed - Opened by jcbarret over 3 years ago - 2 comments
Labels: proposed

#89 - new B.1.525 sequences

Pull Request - State: closed - Opened by AngieHinrichs over 3 years ago - 1 comment

#88 - New B.1.617.2 sequences

Pull Request - State: closed - Opened by AngieHinrichs over 3 years ago

#87 - alias_key.json with withdrawn lineages

Issue - State: closed - Opened by danielmoney over 3 years ago - 2 comments

#86 - New "P.n" lineage in Brazil with mutations E484Q and N501T

Issue - State: closed - Opened by aplamarca over 3 years ago - 1 comment
Labels: designated

#85 - Proposal of two new lineages from B.1.1 that seem to rapidly increase in frequency in Russia

Issue - State: closed - Opened by GalkaKlink over 3 years ago - 4 comments
Labels: designated

#84 - My data was not classified correctly

Issue - State: closed - Opened by afmarti over 3 years ago - 1 comment

#83 - (apparent) B.1.617.2 sequences assigned as B.1.153

Issue - State: closed - Opened by jcbarret over 3 years ago - 2 comments
Labels: correction

#82 - B.1.608 representatives have A24389C and G24390C, associated with untrimmed nanopore adapter seq

Issue - State: closed - Opened by AngieHinrichs over 3 years ago - 1 comment

#81 - B.1.553 representatives: ambiguous bases / AD.2; withdraw?

Issue - State: closed - Opened by AngieHinrichs over 3 years ago - 1 comment
Labels: correction

#80 - new lineage: B.1.1.1 with key mutations 69/70del, L452R and S477N

Issue - State: closed - Opened by merijnvanhee over 3 years ago - 9 comments
Labels: designated

#79 - A New Potential lineage (T.1) specifically located in Campania, Italy, is spreading exponentially.

Issue - State: closed - Opened by agrimaldi93 over 3 years ago - 2 comments
Labels: designated

#78 - Request for lineage A.29 with several spike mutations shared with variants of concern (Y449H, N501Y, H655Y)

Issue - State: closed - Opened by SVN-PhD over 3 years ago - 2 comments
Labels: designated

#77 - New SARS-CoV-2 P.1-related lineages proposal - P.1-like-I and P.1-like-II in Brazil

Issue - State: closed - Opened by paolacristinaresende over 3 years ago - 6 comments
Labels: designated

#76 - Found 8 pairs of duplicated lines; removed one instance of each.

Pull Request - State: closed - Opened by AngieHinrichs over 3 years ago

#75 - Name updates: USA/CT-JAX[0-9]+ --> USA/CT-JAX-JAX[0-9]+.

Pull Request - State: closed - Opened by AngieHinrichs over 3 years ago

#74 - Updating 400 names changed in GISAID Feb-May 2021.

Pull Request - State: closed - Opened by AngieHinrichs over 3 years ago - 1 comment

#73 - Request for B.1.1.482 Sub-lineage

Issue - State: closed - Opened by mattdmem over 3 years ago - 6 comments
Labels: designated

#72 - Fixing 10 sequence names that had an extra '/Brazil' between isolate and year.

Pull Request - State: closed - Opened by AngieHinrichs over 3 years ago

#71 - Typo fixes: 11 names had '/' instead of '_'.

Pull Request - State: closed - Opened by AngieHinrichs over 3 years ago - 1 comment

#70 - Wrongly assignment of samples to lineage B.1.177, while they should be classified (at least) as B.1.525.

Issue - State: closed - Opened by gabbo89 over 3 years ago - 1 comment
Labels: correction

#69 - Potential new sublineage of B.1.1.X including S:E484K, S:S494P and S:F157_V159del

Issue - State: closed - Opened by GediminasA over 3 years ago - 2 comments
Labels: designated

#68 - Potential new B.1.1.28 sub-lineage with L452R in Brazil

Issue - State: closed - Opened by cibittar over 3 years ago - 8 comments
Labels: designated

#67 - New CA-USA sublineage of B.1

Issue - State: closed - Opened by milospjanic over 3 years ago - 5 comments
Labels: duplicate

#66 - B.1.1.316 and S:E484K

Issue - State: closed - Opened by peich69 over 3 years ago - 3 comments

#65 - Sublineage of B.1.351 spreading rapidly in Bangladesh

Issue - State: closed - Opened by mkedwards over 3 years ago - 2 comments
Labels: designated

#64 - Update to designations of lineage B.1.575 and B.1.575.1

Issue - State: closed - Opened by aineniamh over 3 years ago - 4 comments
Labels: correction

#63 - Proposal to designate a recombinant lineage

Issue - State: closed - Opened by benjamincjackson over 3 years ago - 2 comments
Labels: designated

#62 - Proposed lineage within B.1 with N501Y, E484K, P681H first detected in Colombia.

Issue - State: closed - Opened by erikalmecdc over 3 years ago - 2 comments

#61 - Proposal to merge B.1.1.338 B.1.1.336 into larger sublineage B.1.1/P681H

Issue - State: closed - Opened by babarlelephant over 3 years ago - 1 comment
Labels: not accepted

#60 - New sublineage of B.1.1.7 including S:E484K

Issue - State: closed - Opened by fabou-uobaf over 3 years ago - 1 comment
Labels: designated

#59 - Proposal for new lineage within B.1 as 20% of the samples labelled as B.1.617 don't fit the lineage description

Issue - State: closed - Opened by animesh-workplace over 3 years ago - 7 comments
Labels: duplicate

#58 - Proposal for new sub-lineage of B.1

Issue - State: closed - Opened by dw974 over 3 years ago - 3 comments
Labels: designated

#57 - Proposal for lineage within B.1 with N501Y, E484K, R346K, P681H Spike substitutions

Issue - State: closed - Opened by ha-ruiz75 over 3 years ago - 1 comment
Labels: designated

#56 - Proposal of lineage P.1.2 - Brazil, Australia, Netherlands, Spain, England, United States

Issue - State: closed - Opened by aplamarca over 3 years ago - 4 comments
Labels: designated

#55 - Possible new emerging sub-lineage under recently designated lineage B.1.617

Issue - State: closed - Opened by banijolly over 3 years ago - 2 comments
Labels: duplicate

#54 - Diverged descendant of B.1 with multiple VOC-like mutations and deletions.

Issue - State: closed - Opened by evogytis over 3 years ago - 3 comments
Labels: designated

#53 - Subclade of B.1.1.317 with S: D138Y, S477N, Q675R spreading in Russia, Poland, spotted in Australia, New Zealand

Issue - State: closed - Opened by mkedwards over 3 years ago - 10 comments
Labels: not accepted

#52 - Subclade of B.1.1.1 (resulting from a discrete evolutionary sprint in December/January?) widespread in Chile

Issue - State: closed - Opened by mkedwards over 3 years ago - 6 comments
Labels: designated

#51 - Correct B.1.1.7 definition to remove deletions in S, ORF1a

Issue - State: closed - Opened by mkedwards over 3 years ago - 9 comments
Labels: comment

#50 - B.1.1.29 note

Issue - State: closed - Opened by aineniamh over 3 years ago

#49 - Potential sequences that should be included in B.1.617

Issue - State: closed - Opened by aineniamh over 3 years ago - 16 comments
Labels: correction

#48 - What happened to B.1.438?

Issue - State: closed - Opened by mattheww95 over 3 years ago - 1 comment
Labels: correction

#47 - Potential new B.1.1.370 sublineage Russia and Finland with spike E484K and others

Issue - State: closed - Opened by teemusmura over 3 years ago - 3 comments
Labels: designated

#46 - New possible sub-lineage under B.1 in West Bengal in India

Issue - State: closed - Opened by banijolly over 3 years ago - 1 comment
Labels: designated

#45 - Lineages B.1.526, B.1.526.1 and B.1.526.2

Issue - State: closed - Opened by andersonbrito over 3 years ago - 19 comments
Labels: urgent, correction

#44 - Proposal for a new sub-lineage of B.1 with spike substitutions N440K and E484K

Issue - State: closed - Opened by nsierropmi over 3 years ago - 1 comment
Labels: designated

#43 - New sub lineages of B.1.214 (B.1.214.3 and B.1.214.4)

Issue - State: closed - Opened by aineniamh over 3 years ago

#42 - New proposed sub-lineage in India under B.1

Issue - State: closed - Opened by banijolly over 3 years ago - 2 comments
Labels: duplicate, designated

#41 - already proposed - lineage in B.1 India L452R E484Q P681R

Issue - State: closed - Opened by babarlelephant over 3 years ago - 1 comment
Labels: duplicate

#40 - Proposal for lineage within B.1.1.33 (Suggestion lineage N.10)

Issue - State: closed - Opened by paolacristinaresende over 3 years ago - 2 comments
Labels: designated

#39 - Lithuanian B.1.1.7 sub-lineage

Issue - State: closed - Opened by evogytis over 3 years ago - 2 comments
Labels: designated

#38 - Proposed new B.1 sublineage circulating in India

Issue - State: closed - Opened by grovesn over 3 years ago - 2 comments
Labels: designated

#37 - Sublineage of B.1.429 with S:Q677H (as well as ORF1a:F2827L, ORF3a:A23V, and N:P142S)

Issue - State: closed - Opened by tomkinsc over 3 years ago - 3 comments
Labels: designated

#36 - Alias of C.6 and C.10

Issue - State: closed - Opened by aretchless over 3 years ago - 1 comment
Labels: comment

#35 - Proposal for sublineage B.1.243.1

Issue - State: closed - Opened by aineniamh over 3 years ago
Labels: designated

#34 - Proposal for sub-lineage R.1.1.

Issue - State: closed - Opened by stephlunn-ky over 3 years ago - 6 comments
Labels: not accepted

#33 - Potential new linegage A.2.4.X in Panama and Costa Rica with Spike L452R substitutions and 141-143 deletion.

Issue - State: closed - Opened by AAMCgenomics over 3 years ago - 6 comments
Labels: designated

#32 - Proposal for new lineage C.2.1

Issue - State: closed - Opened by leomrtns over 3 years ago - 2 comments
Labels: designated

#31 - COVID-19 cluster with unusual clinical presentation in France

Issue - State: closed - Opened by Simon-LoriereLab over 3 years ago - 14 comments
Labels: designated

#30 - Proposal for new lineage within B.1

Issue - State: closed - Opened by hsnguyen over 3 years ago - 6 comments
Labels: proposed

#29 - Sublineages of B.1.1.28 (proposed P.4) circulating in South Brazil with N:P13L, ORF3a:T151I and ORF9b:P10S mutations

Issue - State: closed - Opened by fhsantanna over 3 years ago - 8 comments
Labels: designated

GitHub / cov-lineages/pango-designation issues and pull requests