nextstrain / ncov-ingestLinks
A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.
☆37Updated 3 weeks ago
Alternatives and similar repositories for ncov-ingest
Users that are interested in ncov-ingest are comparing it to the libraries listed below
Sorting:
- SARS-CoV-2 variant calling and consensus assembly pipeline☆25Updated last year
- Global phylogenies of SARS-CoV-2 sequences☆86Updated last year
- Nextstrain build for mpox virus☆49Updated last week
- Malleable All-seeing Journal Of Research Artifacts☆36Updated 2 years ago
- Rapid analysis and visualization of coronavirus genome variation☆48Updated this week
- R Data Exploration for Serratus☆15Updated 2 years ago
- Reconstruction of transmission trees using genomic data☆63Updated last year
- Snakemake skeleton - Build workflows with Snakemake☆19Updated last year
- Data and scripts for Zika virus tutorial☆10Updated 8 months ago
- PiGx SARS-CoV-2 wastewater sequencing pipeline☆18Updated 2 years ago
- ☆37Updated 3 months ago
- serious constellations of reoccurring phylogenetically-independent origin☆39Updated last year
- Wasabi is a web-based tool for evolutionary sequence analysis. Homepage: http://wasabiapp.org☆17Updated 3 years ago
- Local Lineage and Monophyly Assessment☆16Updated 4 years ago
- A collection of publications on comparison of high-throughput sequencing technologies.☆28Updated 7 months ago
- A statically generated catalog of available Snakemake workflows☆35Updated last week
- A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies☆34Updated last year
- phylogenetic analyses informed by deep mutational scanning data☆15Updated last year
- Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples☆34Updated 4 months ago
- Lecture on viral phylodynamics☆12Updated 3 years ago
- ☆74Updated last year
- A COVID-19 CoV Genetics (CG) browser to inform therapeutics development☆27Updated 3 weeks ago
- Reference-guided multiple sequence alignment of viral genomes☆70Updated 2 months ago
- Metagenomic profiling and phylogenetic distances via common kmers☆42Updated 4 years ago
- A tool for exploring large trees in the browser☆114Updated this week
- A Nextflow pipeline to identify quality control issues with new sequencing data.☆28Updated 2 years ago
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics☆20Updated 6 years ago
- FFPopSim is a collection of C++ classes and a Python interface for efficient simulation of large populations, in particular when the prod…☆14Updated 2 months ago
- Tutorial on Bayesian phylogenetic analysis☆46Updated 7 years ago
- Welcome to the StrainHub Repo - Files and Data - StrainHub Online:☆17Updated 3 years ago