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snk Public
Forked from Wytamma/snkSnakemake workflow management system and CLI generation tool
Python MIT License UpdatedNov 1, 2024 -
bioconda-recipes Public
Forked from bioconda/bioconda-recipesConda recipes for the bioconda channel.
Shell MIT License UpdatedJul 15, 2024 -
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TreeTools.jl Public
Forked from PierreBarrat/TreeTools.jlTools for handling phylogenetic or genealogic trees with Julia. Mainly serves as a dependency for my other package TreeKnit
Julia MIT License UpdatedJan 22, 2024 -
example-nextstrain-workflow Public
Example Nextstrain workflow based on public SARS-CoV-2 sequences from GenBank
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TreeKnit.jl Public
Forked from PierreBarrat/TreeKnit.jlTreeKnit is a package that infers Ancestral Reassortment Graphs for segmented genomes (typically, human influenza).
Julia MIT License UpdatedSep 14, 2023 -
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seasonal-flu-reports Public
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treetime Public
Forked from neherlab/treetimeMaximum likelihood inference of time stamped phylogenies and ancestral reconstruction
Jupyter Notebook MIT License UpdatedOct 31, 2022 -
nextclade_data_workflows Public
Forked from neherlab/nextclade_data_workflowsPython UpdatedJul 22, 2022 -
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santa-sim Public
Forked from santa-dev/santa-simA forward-time simulator for gene sequences modeling a variety of mutation and selection processes.
Java UpdatedJun 9, 2022 -
ncov-kenya Public template
Example build configuration for SARS-CoV-2 analysis for Kenya
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nextstrain-narratives-demo Public
Demonstration of Nextstrain narratives
MIT License UpdatedNov 11, 2021 -
nextstrain-narratives Public template
Demonstration of how to use Nextstrain narratives
MIT License UpdatedSep 29, 2021 -
ncov-africa Public
Forked from blab/ncov-africaExample SARS-CoV-2 build for South Africa
MIT License UpdatedAug 3, 2021 -
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zika-tutorial Public
Forked from nextstrain/zika-tutorialData and scripts for Zika virus tutorial
Python UpdatedApr 15, 2021 -
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usa-sarscov2 Public
Prototype of state- and territory-level SARS-CoV-2 Nextstrain builds
Python MIT License UpdatedSep 14, 2020 -
mobility-on-phylogenies Public archive
Minimal example of mapping mobility data to phylogenies of SARS-CoV-2 genomes
Jupyter Notebook MIT License UpdatedSep 3, 2020 -
architecture-patterns-with-python Public
Forked from cosmicpython/codeExample application code for the python architecture book
Python Other UpdatedAug 19, 2020 -
ncov Public template
Forked from nextstrain/ncovNextstrain build for novel coronavirus SARS-CoV-2
Python MIT License UpdatedAug 14, 2020 -
seasonal-flu-from-ncov Public
A quick and dirty attempt to implement a seasonal flu pipeline with the existing ncov workflow
UpdatedJun 30, 2020 -
cartography Public
Forked from blab/cartographyReduced dimension embeddings for pathogen sequences
Jupyter Notebook MIT License UpdatedMar 26, 2020 -
git-novice Public
Forked from swcarpentry/git-noviceSoftware Carpentry introduction to Git for novices.
HTML Other UpdatedAug 6, 2019 -
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