pangolin
Software package for assigning SARS-CoV-2 genome sequences to global lineages. (by cov-lineages)
pango-designation
Repository for suggesting new lineages that should be added to the current scheme (by cov-lineages)
| pangolin | pango-designation | |
|---|---|---|
| 3 | 209 | |
| 413 | 1,028 | |
| 0.5% | 0.5% | |
| 5.7 | 0.0 | |
| 8 days ago | 4 days ago | |
| Python | Jupyter Notebook | |
| GNU General Public License v3.0 only | GNU General Public License v3.0 or later |
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.
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.
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]
-
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]
What are some alternatives?
When comparing pangolin and pango-designation you can also consider the following projects:
nextclade - Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
pangoLEARN - Store of the trained model for pangolin to access.
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
pangolin vs nextclade
pango-designation vs pangoLEARN
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