Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
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Updated
Aug 23, 2024 - Rust
Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
Influenza forecasts visualizer
An experimental deep learning & genotype network-based system for predicting new influenza protein sequences.
🛡Crowd-sourced COVID-19 reporting and assessment system.
Import script needed to build FluPRINT database from source 💻
The Flexible Epidemic Modeling Pipeline
Gene and Primer Sequence Analysis for SARS-CoV-2, EGFR(Non Small Lung Cancer Cell), Influenza DNAs ### How can I check my Oligo primers to ensure there are no significant primer design issues? - The difference between melting temperatures (Tm) of the primers should be less than 5°C. - The GC content should be between 35-80% or equivalent to the …
Integrating genotypes and phenotypes improves long-term forecasts of seasonal influenza A/H3N2 evolution
vSNP -- validate SNPs
We apply combinatorial mutagenesis and next-generation sequencing to characterize the local fitness landscape in an antigenic region of NA in six different human H3N2 strains that were isolated around 10 years apart. This pipeline is used to analyze data and plotting.
A Python script that sends Italian flu updates to Mastodon
Data on US ILI, influenza pos lab tests, and total influenza cases from 1998-2019
RECDS identifies cluster-transition determining sites underlying the antigenic evolution of seasonal influenza viruses
Query the 'CMU' 'DELPHI' Epidemiological Data 'API' (package wrapper https://github.com/cmu-delphi/delphi-epidata/blob/master/src/client/delphi_epidata.R)
stochastic modeling | HMM
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