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Top 23 Python covid-19 Projects
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covid-19-data
Data on COVID-19 (coronavirus) cases, deaths, hospitalizations, tests • All countries • Updated daily by Our World in Data (by owid)
Project mention: COVID no longer a global health emergency, World Health Organisation says | reddit.com/r/Coronavirus | 2023-05-05Finally! This is the right thing to do. COVID-19 now kills only 378 people each day globally (7-day rolling average, Source: https://ourworldindata.org/coronavirus). This is extremely low compared to almost the entire pandemic.
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ONLYOFFICE
ONLYOFFICE Docs — document collaboration in your environment. Powerful document editing and collaboration in your app or environment. Ultimate security, API and 30+ ready connectors, SaaS or on-premises
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tika-python
Tika-Python is a Python binding to the Apache Tika™ REST services allowing Tika to be called natively in the Python community.
Project mention: Document Parsing - an unsolved problem? | reddit.com/r/LanguageTechnology | 2022-07-19At my previous job we had the same problem which we solved by using Tika. We called it on the server along with other stuff, but there is also a Python binding.
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seirsplus
Models of SEIRS epidemic dynamics with extensions, including network-structured populations, testing, contact tracing, and social distancing.
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InfluxDB
Access the most powerful time series database as a service. Ingest, store, & analyze all types of time series data in a fully-managed, purpose-built database. Keep data forever with low-cost storage and superior data compression.
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Project mention: [R] Foresight: Deep Generative Modelling of Patient Timelines using Electronic Health Records | reddit.com/r/MachineLearning | 2022-12-20
You can find medcat here.
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Project mention: Error when trying to install dlib using "pip install dlib" | reddit.com/r/learnpython | 2023-02-15
I'm trying to install dlib using "pip install dlib" for this code: https://github.com/saimj7/People-Counting-in-Real-Time Because when I try to run it I get this error: ModuleNotFoundError: No module named 'dlib'
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covariants
Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
Project mention: China's Covid cases hit record as dissent grows over tough restrictions | reddit.com/r/Coronavirus | 2022-11-24This process has produced thousands of variants already, and a considerable number that have bypassed immunity to previous variants. https://covariants.org/
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data
Daily time-series epidemiology and hospitalization data for all countries, state/province data for 50+ countries and county/municipality data for CO, FR, NL, PH, UK and US. Covariates for all available regions include demographics, mobility reports, government interventions, weather and more. (by open-covid-19)
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covasim
COVID-19 Agent-based Simulator (Covasim): a model for exploring coronavirus dynamics and interventions
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covid-19-germany-gae
COVID-19 statistics for Germany. For states and counties. With time series data. Daily updates. Official RKI numbers.
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CoWin-Vaccine-Notifier
Automated Python Script to retrieve vaccine slots availability and get notified when a slot is available.
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covid19-sir
CovsirPhy: Python library for COVID-19 analysis with phase-dependent SIR-derived ODE models.
Project mention: Show HN: Deptry, a tool to check for dependency issues in a Python project | news.ycombinator.com | 2022-09-14I have recently been working on a project called `deptry`, a command line tool to check for issues in the dependencies of Python projects. It can be used to find obsolete, missing, transitive and misplaced development dependencies. It supports the following types of projects:
- Projects that use Poetry and a corresponding pyproject.toml file
- Projects that use a requirements.txt file according to the pip standards
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* Documentation: https://fpgmaas.github.io/deptry/
* GitHub repository: https://github.com/fpgmaas/deptry
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I am quite happy with the project in its current form, but I also realise there is still a lot of room left for improvement. Therefore, I hope some people are willing to give it a try and provide me with feedback. So; if you have a project with a long list of dependencies and a little bit of spare time on your hands, please give it a try and let me know what you think!
If you encounter any issues, find a bug, or have any other form of feedback, please don't hesitate to raise an issue in the GitHub repository, or leave a comment here.
Kind regards,
Florian
P.S. Many thanks to Hirokazu Takaya (https://github.com/lisphilar) for incorporating it in the CI/CD pipeline of his project covid19-sir (https://github.com/lisphilar/covid19-sir). It provided me with very valuable early feedback.
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COVID-19-RNA-Seq-datasets
A repository for sharing information on available COVID-19 RNA-Seq datasets
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COVID19_AgentBasedSimulation
COVID-ABS: An Agent-Based Model of COVID-19 Epidemic to Simulate Health and Economic Effects of Social Distancing Interventions
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CodiumAI
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Python covid-19 related posts
- COVID no longer a global health emergency, World Health Organisation says
- [P] Parse research papers into structured data
- Parse research papers into a structured dataset
- ETL for medical and scientific papers
- ETL for medical and scientific papers
- ETL for medical and scientific papers
- Show HN: ETL for Medical and Scientific Papers
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A note from our sponsor - CodiumAI
codium.ai | 31 May 2023
Index
What are some of the best open-source covid-19 projects in Python? This list will help you:
Project | Stars | |
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1 | covid-19-data | 5,592 |
2 | corona | 2,377 |
3 | coronavirus-tracker-api | 1,603 |
4 | tika-python | 1,283 |
5 | covid-19 | 1,154 |
6 | seirsplus | 635 |
7 | covid-vaccine-booking | 601 |
8 | doctoshotgun | 556 |
9 | vaccipy | 536 |
10 | BERTweet | 516 |
11 | asreview | 442 |
12 | MedCAT | 331 |
13 | People-Counting-in-Real-Time | 324 |
14 | covariants | 304 |
15 | data | 277 |
16 | impf-botpy | 253 |
17 | covasim | 221 |
18 | covid-19-germany-gae | 147 |
19 | CoWin-Vaccine-Notifier | 102 |
20 | covid19-sir | 98 |
21 | COVID-19-RNA-Seq-datasets | 69 |
22 | COVID19_AgentBasedSimulation | 66 |
23 | typedb-bio | 64 |