owid/covid-19-data

Data on COVID-19 (coronavirus) cases, deaths, hospitalizations, tests • All countries • Updated daily by Our World in Data

Language: Python - Size: 94.2 GB - Last synced at: 12 days ago - Pushed at: 9 months ago - Stars: 5,668 - Forks: 3,630

soroushchehresa/awesome-coronavirus

🦠 Huge collection of useful projects and resources for COVID-19 (2019 novel Coronavirus)

Language: TypeScript - Size: 2.61 MB - Last synced at: 26 days ago - Pushed at: about 1 year ago - Stars: 1,570 - Forks: 343

neherlab/covid19_scenarios

Models of COVID-19 outbreak trajectories and hospital demand

Language: JavaScript - Size: 56.5 MB - Last synced at: 11 days ago - Pushed at: over 3 years ago - Stars: 1,355 - Forks: 349

nextstrain/ncov

Nextstrain build for SARS-CoV-2

Language: Python - Size: 28.4 MB - Last synced at: 2 days ago - Pushed at: 3 days ago - Stars: 1,353 - Forks: 405

lindawangg/COVID-Net

COVID-Net Open Source Initiative

Language: Jupyter Notebook - Size: 64.9 MB - Last synced at: 10 days ago - Pushed at: over 2 years ago - Stars: 1,155 - Forks: 479

FoldingAtHome/coronavirus

Folding@home COVID-19 efforts

Language: Python - Size: 1.27 GB - Last synced at: 3 days ago - Pushed at: over 4 years ago - Stars: 1,089 - Forks: 78

makers-for-life/makair

🫁 The world's first open-source ventilator tested on human patients. Mass-producible at a low cost (~2000€).

Size: 347 MB - Last synced at: 2 months ago - Pushed at: 10 months ago - Stars: 820 - Forks: 78

ryansmcgee/seirsplus

Models of SEIRS epidemic dynamics with extensions, including network-structured populations, testing, contact tracing, and social distancing.

Language: Python - Size: 25.3 MB - Last synced at: 22 days ago - Pushed at: about 2 years ago - Stars: 668 - Forks: 220

GuangchuangYu/nCov2019

query stats of infected coronavirus cases

Language: R - Size: 12.6 MB - Last synced at: about 1 year ago - Pushed at: almost 4 years ago - Stars: 435 - Forks: 165

je-suis-tm/graph-theory

Julia and Python complex system applications in ecology, epidemiology, sociology, economics & finance; network science models including Bianconi-Barabási, Barabási-Albert, Watts-Strogatz, Waxman Model & Erdős-Rényi; graph theory algorithms involving Gillespie, Bron Kerbosch, Ramsey, Bellman Ford, A*, Kruskal, Borůvka, Prim, Dijkstra, DSatur, Randomized Distributed, Vizing, Topological Sort, DFS, BFS

Language: Jupyter Notebook - Size: 38.7 MB - Last synced at: 7 days ago - Pushed at: about 3 years ago - Stars: 374 - Forks: 90

hodcroftlab/covariants

Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.

Language: Python - Size: 1.16 GB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 320 - Forks: 110

ababaian/serratus

Ultra-deep search for novel viruses

Language: Jupyter Notebook - Size: 6.88 MB - Last synced at: 7 days ago - Pushed at: about 2 years ago - Stars: 268 - Forks: 35

nextstrain/nextclade

Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement

Language: Rust - Size: 59.2 MB - Last synced at: 11 days ago - Pushed at: 12 days ago - Stars: 232 - Forks: 62

WeileiZeng/Open-Source-COVID-19

A global collection of Open Source projects during COVID-19

Language: Python - Size: 20.4 MB - Last synced at: 14 days ago - Pushed at: about 2 years ago - Stars: 230 - Forks: 53

CSSEGISandData/COVID-19_Unified-Dataset

Unified COVID-19 Dataset

Language: R - Size: 95.5 GB - Last synced at: about 2 months ago - Pushed at: almost 2 years ago - Stars: 184 - Forks: 60

SoftMatterGroupCambridge/pyross

PyRoss: inference, forecasts, and optimised control of epidemiological models in Python. github.com/rajeshrinet/pyross

Language: Jupyter Notebook - Size: 145 MB - Last synced at: 16 days ago - Pushed at: 9 months ago - Stars: 168 - Forks: 57

robert-koch-institut/COVID-19-Impfungen_in_Deutschland

Die COVID-19-Impfung kann einen Wendepunkt in der Kontrolle der COVID-19-Pandemie darstellen und erfährt daher hohes Maß an öffentlicher Aufmerksamkeit. Einführung und Umsetzung der COVID-19-Impfung gehen mit besonderen Herausforderungen einher, die bei der Impfdatenerfassung zu berücksichtigen sind. In diesem Kontext ist es Ziel des Projekts 'D...

Size: 533 MB - Last synced at: about 2 months ago - Pushed at: 2 months ago - Stars: 165 - Forks: 33

nf-core/viralrecon

Assembly and intrahost/low-frequency variant calling for viral samples

Language: Nextflow - Size: 9.89 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 137 - Forks: 128

cbg-ethz/V-pipe

V-pipe is a pipeline designed for analysing NGS data of short viral genomes

Language: Jupyter Notebook - Size: 17.4 MB - Last synced at: 9 days ago - Pushed at: 25 days ago - Stars: 136 - Forks: 46

yatisht/usher

Ultrafast Sample Placement on Existing Trees

Language: C++ - Size: 41.4 MB - Last synced at: 12 days ago - Pushed at: 13 days ago - Stars: 127 - Forks: 42

kaushikjadhav01/COVID-19-Detection-Flask-App-based-on-Chest-X-rays-and-CT-Scans

COVID-19 Detection Chest X-rays and CT scans: COVID-19 Detection based on Chest X-rays and CT Scans using four Transfer Learning algorithms: VGG16, ResNet50, InceptionV3, Xception. The models were trained for 500 epochs on around 1000 Chest X-rays and around 750 CT Scan images on Google Colab GPU. A Flask App was later developed wherein user can upload Chest X-rays or CT Scans and get the output of possibility of COVID infection.

Language: Jupyter Notebook - Size: 399 MB - Last synced at: about 2 months ago - Pushed at: over 1 year ago - Stars: 126 - Forks: 80

haydengunraj/COVIDNet-CT

COVID-Net Open Source Initiative - Models and Data for COVID-19 Detection in Chest CT

Language: Jupyter Notebook - Size: 18.2 MB - Last synced at: about 2 months ago - Pushed at: almost 2 years ago - Stars: 123 - Forks: 47

greenelab/covid19-review

A collaborative review of the emerging COVID-19 literature. Join the chat here:

Language: TeX - Size: 8.75 GB - Last synced at: 10 days ago - Pushed at: over 1 year ago - Stars: 117 - Forks: 82

OpenGene/fastv

An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infectious diseases, like COVID-19.

Language: C++ - Size: 1.02 MB - Last synced at: 10 days ago - Pushed at: over 1 year ago - Stars: 116 - Forks: 25

Project-Evidence/project-evidence.github.io

Evidence SARS-CoV-2 Emerged From a Biological Laboratory in Wuhan, China

Language: HTML - Size: 43.4 MB - Last synced at: 6 months ago - Pushed at: about 5 years ago - Stars: 111 - Forks: 21

neherlab/SARS-CoV-2_variant-reports

Informal summaries of notable SARS-CoV-2 lineages

Size: 40.1 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 109 - Forks: 12

ailabstw/social-distancing

A simple, decentralized. privacy-reserving contact tracing system

Language: Makefile - Size: 321 KB - Last synced at: about 2 years ago - Pushed at: almost 4 years ago - Stars: 87 - Forks: 6

covid19-eu-zh/covid19-eu-data

Automated Data Collection: COVID-19/SARS-COV-2 Cases in EU by Country, State/Province/Local Authorities, and Date

Language: HTML - Size: 13 GB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 80 - Forks: 20

broadinstitute/pyro-cov

Pyro models of SARS-CoV-2 variants

Language: Jupyter Notebook - Size: 424 MB - Last synced at: about 2 months ago - Pushed at: 10 months ago - Stars: 78 - Forks: 30

urmi-21/COVID-19-RNA-Seq-datasets

A repository for sharing information on available COVID-19 RNA-Seq datasets

Language: Python - Size: 258 KB - Last synced at: about 1 year ago - Pushed at: about 3 years ago - Stars: 77 - Forks: 22

Wytamma/GISAIDR

Programmatically interact with the GISAID database.

Language: R - Size: 180 KB - Last synced at: 7 days ago - Pushed at: about 2 months ago - Stars: 75 - Forks: 9

robert-koch-institut/SARS-CoV-2-Infektionen_in_Deutschland_Archiv

Der vorliegende Datansatz enthält umfassende Informationen zu SARS-CoV-2-Infektionen in Deutschland, die gemäß dem Infektionsschutzgesetze (IfSG) von den Gesundheitsämtern an das Robert Koch-Institut (RKI) gemeldet wurden. Die Daten umfassen Informationen zur Anzahl der bestätigten Fälle, Todesfälle und Genesungen.

Size: 24 GB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 74 - Forks: 6

robert-koch-institut/SARS-CoV-2-Nowcasting_und_-R-Schaetzung

Das Nowcasting erstellt eine Schätzung des Verlaufs der Anzahl von bereits erfolgten SARS-CoV-2-Erkrankungsfällen in Deutschland unter Berücksichtigung des Diagnose-, Melde- und Übermittlungsverzugs.

Size: 8.15 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 74 - Forks: 27

robert-koch-institut/COVID-19-Hospitalisierungen_in_Deutschland

Im Datensatz 'COVID-19-Hospitalisierungen' werden die aktuellen Zahlen der nach den Vorgaben des Infektionsschutzgesetzes - IfSG - erfassten hospitalisierten COVID-19-Fälle bereitgestellt.

Size: 192 MB - Last synced at: 8 days ago - Pushed at: 8 days ago - Stars: 73 - Forks: 10

robert-koch-institut/SARS-CoV-2-Sequenzdaten_aus_Deutschland

Ein zentraler Bestandteil einer erfolgreichen Erregersurveillance ist das Verständnis der Verbreitung eines Erregers sowie seiner pathogenen Eigenschaften. Hierbei stellt das Wissen über das Erregergenom eine wichtige Informationsquelle dar. So erlaubt der Nachweis von Mutationen im Genom eines Erregers, Verwandtschaftsbeziehungen zu rekonstruie...

Size: 11.5 GB - Last synced at: 12 days ago - Pushed at: 12 days ago - Stars: 68 - Forks: 7

yijunwang0805/covid-19

COVID-19 infectious forecasting using SEIR model and R0 estimation

Language: Jupyter Notebook - Size: 619 KB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 67 - Forks: 19

BlueBrain/BioExplorer

The Blue Brain BioExplorer (BBBE) is a tool for data visualization experts and scientists to extract and analyze scientific data from visualization and interactive exploration

Language: C++ - Size: 444 MB - Last synced at: 15 days ago - Pushed at: 7 months ago - Stars: 65 - Forks: 10

GenSpectrum/cov-spectrum-website

A web platform to detect and analyze variants of SARS-CoV-2

Language: TypeScript - Size: 23.5 MB - Last synced at: 19 days ago - Pushed at: 3 months ago - Stars: 61 - Forks: 15

boogheta/coronavirus-countries

COVID-19 interactive dashboard for the whole world

Language: JavaScript - Size: 2.65 GB - Last synced at: 20 days ago - Pushed at: 21 days ago - Stars: 55 - Forks: 16

Big-Life-Lab/PHES-ODM

The Public Health Environmental Surveillance Open Data Model (PHES-ODM, or ODM). A data model, dictionary and support tools for environmental surveillance.

Language: Python - Size: 59.2 MB - Last synced at: 1 day ago - Pushed at: 4 months ago - Stars: 54 - Forks: 18

CDCgov/datasets-sars-cov-2

Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)

Language: Perl - Size: 266 KB - Last synced at: about 1 month ago - Pushed at: about 2 years ago - Stars: 54 - Forks: 21

UPHL-BioNGS/Cecret

Reference-based consensus creation

Language: Nextflow - Size: 278 MB - Last synced at: 6 days ago - Pushed at: 6 days ago - Stars: 53 - Forks: 28

sars-cov-2-variants/lineage-proposals

Repository to propose and discuss lineages

Language: Python - Size: 813 KB - Last synced at: 1 day ago - Pushed at: 2 days ago - Stars: 50 - Forks: 3

ynshung/covid-19-malaysia 📦

Malaysia COVID-19 dataset by country, states and clusters (Archived)

Size: 202 KB - Last synced at: about 16 hours ago - Pushed at: 25 days ago - Stars: 49 - Forks: 39

lenaschimmel/sc2rf

SARS-Cov-2 Recombinant Finder for fasta sequences

Language: Python - Size: 791 KB - Last synced at: about 2 months ago - Pushed at: almost 3 years ago - Stars: 49 - Forks: 13

henriquemor/covid19-Brazil-timeseries

Data collection to analyze the dissemination of COVID-19 through Brazilian states. Contributions are welcome.

Size: 19.9 MB - Last synced at: almost 2 years ago - Pushed at: over 3 years ago - Stars: 45 - Forks: 13

covid19cuba/covid19cuba-app

Mobile application of Covid19 Cuba Data project implemented with Flutter

Language: Dart - Size: 16.3 MB - Last synced at: 9 days ago - Pushed at: over 4 years ago - Stars: 44 - Forks: 16

alfkoehn/CO2_monitor

An open-source CO2 monitor helping to ensure a healthy environment in a class room and slowing down the spread of the corona SARS-CoV-2 virus.

Language: TeX - Size: 23.1 MB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 43 - Forks: 8

rivas-lab/covid19

As a part of COVID-19 Host Genetics Initiative, we perform the following set of analyses to better understand the genetic basis of COVID-19 susceptibility and severity.

Language: Jupyter Notebook - Size: 6.18 MB - Last synced at: 3 months ago - Pushed at: about 5 years ago - Stars: 43 - Forks: 7

neherlab/covid19_scenarios_data 📦

Data preprocessing scripts and preprocessed data storage for COVID-19 Scenarios project

Language: Python - Size: 2.33 MB - Last synced at: about 1 year ago - Pushed at: about 5 years ago - Stars: 42 - Forks: 36

immunomind/covid19

🦠 Regularly updated list of publicly available datasets with single-cell (scRNAseq) and T-cell/antibody immune repertoire (AIRR / RepSeq / immunosequencing) data of COVID-19 patients with SARS-CoV-2.

Size: 470 KB - Last synced at: about 2 years ago - Pushed at: about 5 years ago - Stars: 41 - Forks: 4

replikation/poreCov

SARS-CoV-2 workflow for nanopore sequence data

Language: Nextflow - Size: 28.4 MB - Last synced at: 21 days ago - Pushed at: 21 days ago - Stars: 40 - Forks: 17

bioinf-mcb/gisaid-scrapper

Scrapping tool for GISAID data regarding SARS-CoV-2

Language: Python - Size: 43 KB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 38 - Forks: 15

nextstrain/ncov-ingest

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.

Language: Python - Size: 402 MB - Last synced at: 19 days ago - Pushed at: 20 days ago - Stars: 36 - Forks: 20

mponce0/covid19.analytics

R package to obtain and analyze live data from the nCOVID19 coronavirus

Language: R - Size: 482 MB - Last synced at: 1 day ago - Pushed at: almost 3 years ago - Stars: 35 - Forks: 11

maximilianh/multiSub

Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input directory and merges everything into a single output directory. Auto-detects input file formats. Can submit the results to multiple repositories from the command line.

Language: Python - Size: 1020 KB - Last synced at: 10 months ago - Pushed at: about 3 years ago - Stars: 35 - Forks: 2

MacSchierer/Covid-19_Ampel

Covid-19_Ampel | Zeigt neben der 7-Tage-Inzidenz weitere Infos zu einer Region.

Language: JavaScript - Size: 5.45 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 32 - Forks: 14

pha4ge/SARS-CoV-2-Contextual-Data-Specification

Collection template and associated materials for SARS-CoV-2 metadata

Size: 7.39 MB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 31 - Forks: 9

alexamici/covid-19-notebooks

Data analysis of the COVID-19 outbreak in Italy updated daily from official sources

Language: Jupyter Notebook - Size: 126 MB - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 30 - Forks: 11

internetztube/jaukerl-ooe

Overview page for all COVID vaccination appointments in Upper Austria. 💉

Language: Vue - Size: 6.38 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 29 - Forks: 2

shreshthtuli/covid-19-prediction

[IoT'20] Predicting the Growth and Trend of COVID-19 Pandemic using Machine Learning and Cloud Computing

Language: Python - Size: 43.9 MB - Last synced at: 6 months ago - Pushed at: over 4 years ago - Stars: 29 - Forks: 13

zeroday0619/COVID-19API 📦

COVID-19 API

Language: Python - Size: 376 KB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 28 - Forks: 6

MolSSI/covid

MolSSI SARS-CoV-2 Biomolecular Simulation Data and Algorithm Store

Language: HTML - Size: 8.63 MB - Last synced at: 12 months ago - Pushed at: over 1 year ago - Stars: 27 - Forks: 49

chasewnelson/Taiwan-COVID-19

Analysis and visualization of Taiwan’s COVID-19 data

Language: R - Size: 54.7 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 27 - Forks: 4

flaviovdf/covid19

Estimativas de R(t) por Estados do Brasil

Language: Jupyter Notebook - Size: 1.49 GB - Last synced at: about 2 years ago - Pushed at: almost 4 years ago - Stars: 27 - Forks: 7

hollobit/COVID-19-AI

Collection of AI resources to fight against Coronavirus (COVID-19)

Size: 1.88 MB - Last synced at: 3 months ago - Pushed at: about 5 years ago - Stars: 27 - Forks: 11

robert-koch-institut/SARS-CoV-2-Infektionen_in_Deutschland

Der vorliegende Datansatz enthält umfassende Informationen zu SARS-CoV-2-Infektionen in Deutschland, die gemäß dem Infektionsschutzgesetze (IfSG) von den Gesundheitsämtern an das Robert Koch-Institut (RKI) gemeldet wurden. Die Daten umfassen Informationen zur Anzahl der bestätigten Fälle, Todesfälle und Genesungen, aus denen sich weitere Kennzah...

Size: 17.6 MB - Last synced at: 2 days ago - Pushed at: 2 days ago - Stars: 26 - Forks: 3

dg981001/SARS2-Stat-KR

중국 우한 바이러스 한국 확진자 통계

Language: Python - Size: 16.5 MB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 25 - Forks: 8

corneliusroemer/desh-data

Sequence lineage information extracted from RKI sequence data repo

Language: Jupyter Notebook - Size: 506 MB - Last synced at: about 2 months ago - Pushed at: about 3 years ago - Stars: 24 - Forks: 3

brwnj/idplot

compare sequences to a shared root reference sequence.

Language: HTML - Size: 2.78 MB - Last synced at: 3 months ago - Pushed at: over 3 years ago - Stars: 24 - Forks: 4

ailabstw/COVID19-taiwan

Release COVID-19 (SARS-CoV-2) FDA / NHI drugs screening results.

Size: 18.8 MB - Last synced at: about 2 years ago - Pushed at: about 5 years ago - Stars: 24 - Forks: 3

gireeshkbogu/AnomalyDetect

Detects anomalous resting heart rate from smartwatch data.

Language: Python - Size: 130 MB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 23 - Forks: 11

LucaDiba/epidemic-simulator

A HTML/JavaScript simulator for an epidemc on a population

Language: JavaScript - Size: 503 KB - Last synced at: about 1 month ago - Pushed at: about 5 years ago - Stars: 23 - Forks: 5

GenSpectrum/LAPIS

An API, a query engine, and a database schema for genomic sequences; currently with a focus on SARS-CoV-2

Language: Kotlin - Size: 15.2 MB - Last synced at: 6 days ago - Pushed at: 6 days ago - Stars: 22 - Forks: 7

picorana/align_covid

Coronavirus time series aligned by number of cases, not date.

Language: JavaScript - Size: 2.95 MB - Last synced at: about 2 months ago - Pushed at: about 5 years ago - Stars: 22 - Forks: 0

CIDO-ontology/cido

CIDO: Coronavirus Infectious Disease Ontology

Language: Jupyter Notebook - Size: 41.9 MB - Last synced at: 3 months ago - Pushed at: over 1 year ago - Stars: 21 - Forks: 11

covid19-modeling/pyncov-19

Flexible mechanistic epidemiological model to learn and predict the spread of COVID-19

Language: Jupyter Notebook - Size: 1.72 MB - Last synced at: 21 days ago - Pushed at: over 1 year ago - Stars: 21 - Forks: 0

usegalaxy-eu/ena-cog-uk-wfs

Collection of scripts for automated SARS-CoV-2 genome surveillance.

Language: Python - Size: 302 KB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 21 - Forks: 7

IKIM-Essen/uncovar

Transparent and robust SARS-CoV-2 variant calling and lineage assignment with comprehensive reporting.

Language: Python - Size: 3.83 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 20 - Forks: 4

cjvanlissa/COVID19_metadata

Interoperable secondary data for research on the new COVID-19 coronavirus sars-cov-2

Language: R - Size: 85 MB - Last synced at: 10 days ago - Pushed at: over 3 years ago - Stars: 20 - Forks: 17

inf-covid19/data

Scraping world-wide data about COVID-19

Language: Python - Size: 1.36 GB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 19 - Forks: 1

jdieg0/coronavirus-dresden

Collects official SARS-CoV-2 infection statistics published by the city of Dresden.

Language: Python - Size: 3.19 MB - Last synced at: about 2 years ago - Pushed at: about 2 years ago - Stars: 19 - Forks: 1

YuLab-SMU/nCov2019

:microbe: Exploring COVID-19 data

Language: R - Size: 11.9 MB - Last synced at: 12 months ago - Pushed at: over 2 years ago - Stars: 19 - Forks: 7

PaccMann/paccmann_sarscov2

Code for paper on automation of discovery and synthesis of targeted molecules: https://iopscience.iop.org/article/10.1088/2632-2153/abe808

Size: 1.04 MB - Last synced at: 2 months ago - Pushed at: over 3 years ago - Stars: 19 - Forks: 6

CDCgov/MIRA

Language: Python - Size: 192 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 18 - Forks: 6

davetang/sars_cov_2

Bioinformatics analysis of SARS-CoV-2

Language: Perl - Size: 81.8 MB - Last synced at: 9 days ago - Pushed at: over 1 year ago - Stars: 18 - Forks: 6

ktmeaton/ncov-recombinant

Reproducible workflow for SARS-CoV-2 recombinant sequence detection.

Language: Python - Size: 15.7 MB - Last synced at: 5 days ago - Pushed at: about 2 years ago - Stars: 18 - Forks: 2

robert-koch-institut/Abwassersurveillance_AMELAG

Das Vorhaben „Abwassermonitoring für die epidemiologische Lagebewertung“ (AMELAG) läuft vom 22.11.2022 bis zum 31.12.2025. Behörden, Kläranlagen und Labore arbeiten zusammen, um Proben zu nehmen, zu analysieren und zu bewerten. Das Ziel dieses Vorhabens ist es, SARS-CoV-2-Nachweise aus dem Abwasser als zusätzlichen Indikator zur epidemiologische...

Language: R - Size: 165 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 17 - Forks: 2

TRON-Bioinformatics/covigator-ngs-pipeline

A Nextflow pipeline for NGS variant calling on SARS-CoV-2. From FASTQ files to normalized and annotated VCF files from GATK, BCFtools, LoFreq and iVar.

Language: Nextflow - Size: 60.5 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 17 - Forks: 7

BIMSBbioinfo/pigx_sars-cov-2

PiGx SARS-CoV-2 wastewater sequencing pipeline

Language: Python - Size: 143 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 17 - Forks: 3

kussell-lab/viral-mcorr

Using correlated substitutions to infer recombination rates in RNA viruses

Language: Go - Size: 68.4 KB - Last synced at: 12 months ago - Pushed at: over 2 years ago - Stars: 17 - Forks: 1

PingEnLu/Time-dependent_SIR_COVID-19

Codes for the paper "A Time-dependent SIR model for COVID-19 with Undetectable Infected Persons"

Language: Python - Size: 27.3 KB - Last synced at: about 2 years ago - Pushed at: almost 3 years ago - Stars: 17 - Forks: 10

usegalaxy-eu/sars-cov-2-processing-requests

Request execution of Galaxy SARS-CoV-2 variation analysis workflows on input data you provide.

Language: Python - Size: 1.55 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 17 - Forks: 8

amel-github/sars-ani

This is the raw data and code repository of the SARS-ANI project on SARS-CoV-2 events in animals.

Language: R - Size: 333 MB - Last synced at: 27 days ago - Pushed at: 27 days ago - Stars: 16 - Forks: 3

seanpm2001/Code-distancing

Keep your code safe from COVID-19 by staying 6 line breaks apart.

Language: Python - Size: 23.9 MB - Last synced at: 4 days ago - Pushed at: about 1 year ago - Stars: 16 - Forks: 3

myhelix/helix-covid19db

Helix® COVID-19 Surveillance

Size: 2.71 MB - Last synced at: 7 months ago - Pushed at: over 2 years ago - Stars: 16 - Forks: 3

vmchale/coronavirus

covid-19 data in J

Language: J - Size: 8.19 MB - Last synced at: 3 months ago - Pushed at: over 3 years ago - Stars: 16 - Forks: 0

mew/Coronavirus 📦

Java API Wrapper for tracking coronavirus (COVID-19, SARS-CoV-2) via https://git.io/Jvoep

Language: Java - Size: 73.2 KB - Last synced at: about 2 years ago - Pushed at: about 5 years ago - Stars: 16 - Forks: 8

covid19cuba/covid19cubadata.github.io Fork of covid19cubadata/covid19cubadata.github.io

Fork to check data and generate other more comfortable and versioned data from the original data using GitHub Actions

Language: JavaScript - Size: 747 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 15 - Forks: 1

soroushchehresa/cli-corona

📈 Track COVID-19 (2019 novel Coronavirus) statistics via the command line.

Language: TypeScript - Size: 83 KB - Last synced at: 10 days ago - Pushed at: almost 4 years ago - Stars: 15 - Forks: 2