pango-designation
Repository for suggesting new lineages that should be added to the current scheme (by cov-lineages)
pangolin
Software package for assigning SARS-CoV-2 genome sequences to global lineages. (by cov-lineages)
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| pango-designation | pangolin | |
|---|---|---|
| 209 | 3 | |
| 1,027 | 413 | |
| 0.1% | 0.7% | |
| 0.0 | 5.9 | |
| 3 days ago | about 1 month ago | |
| Jupyter Notebook | Python | |
| GNU General Public License v3.0 or later | GNU General Public License v3.0 only |
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
pango-designation
Posts with mentions or reviews of pango-designation.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2021-10-15.
- Sequencing and Variants Update - [Dec 01, 2023]
- Sequencing and Variants Update - [Nov. 24, 2023]
- Sequencing and Variants Update - [Oct. 06]
- Sequencing and Variants Update - [Sep 29, 2023]
- Sequencing and Variants Update - [Sep. 15, 2023]
- Sequencing and Variants Update - [Sep. 08, 2023]
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Daily Notes - August 14, 2023
And don't miss this news as well as the link that goes to the discussion.
- Sequences and Variants Update - [July 28th]
pangolin
Posts with mentions or reviews of pangolin.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2021-11-26.
-
How are Coronavirus classification numbers created, and is there a universal system for all viruses?
The letters and numbers are giving sequential information in the tree, and you can think of numbers further to the right meaning a split further down the tree. Although in an attempt to curtail complexity and ident length , it is not quite as simple as the tree being only 5 layers deep for eg. Delta B.1.617.2. Exact details are on the pangolin github.
- Classification of Omicron (B.1.1.529): SARS-CoV-2 Variant of Concern
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For SARS-CoV-2 genomic analysis, what is the difference in utility of a Pangolin Lineage versus a NextClade Clade (e.g. lineage B.1.617.2 vs clade 21A)?
Lineage and clade assignments--especially by Pangolin and Nextclade, respectively--seem to be the most popular way to characterize SARS-CoV-2 genomes and so I'm wondering how these two concepts are applied differently to inform our understanding of the pandemic.
What are some alternatives?
When comparing pango-designation and pangolin you can also consider the following projects:
pangoLEARN - Store of the trained model for pangolin to access.
nextclade - Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
nitter - Alternative Twitter front-end
CovidColoradoCharts - Charts from Colorado's COVID data
covid-19-excess-deaths-tracker - Source code and data for The Economist's covid-19 excess deaths tracker
privacy-redirect - A simple web extension that redirects Twitter, YouTube, Instagram & Google Maps requests to privacy friendly alternatives.
rt-from-frequency-dynamics
SARS-CoV-2_variant-reports - Informal summaries of notable SARS-CoV-2 lineages
pango-designation vs pangoLEARN
pangolin vs nextclade
pango-designation vs nitter
pango-designation vs CovidColoradoCharts
pango-designation vs covid-19-excess-deaths-tracker
pango-designation vs privacy-redirect
pango-designation vs rt-from-frequency-dynamics
pango-designation vs SARS-CoV-2_variant-reports