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We used to be able to run an example workflow by simply doing
```
snakemake -j1
```
Now not even `clean` works anymore without specifying a profile with inputs:
```
(nextstrain) richard:~/Projec…
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As described in the title, I followed the instructions from [https://artic.network/ncov-2019/ncov2019-it-setup.html](https://artic.network/ncov-2019/ncov2019-it-setup.html) And after entering the comm…
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Almost all Share link identifiers use underscores to separate tokens, but handful of layers use dashes, like "2019-nCOV_infection_confirmed_cases_bubble"
Going to earthtime.org and viewing the laye…
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Data Source :
KCDC : http://www.cdc.go.kr/index.es?sid=a2
Kaggle version : https://www.kaggle.com/kimjihoo/coronavirusdataset
CAIH: http://ncov.mohw.go.kr/en/bdBoardList.do?brdId=16&brdGubun=162&…
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Originally noted in [Slack](https://bedfordlab.slack.com/archives/C01LCTT7JNN/p1709669604154729?thread_ts=1709602389.674809&cid=C01LCTT7JNN) when we first included the ncov-ingest workflows.
We …
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### What functionality is this repo missing?
We have several templates available in [dockerfile-template](https://github.com/StaPH-B/docker-builds/tree/master/dockerfile-template), but there could be…
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https://2019-ncov.jp/
持续更新中
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We want to add clickable links into mutation tooltips. These links would lead to the corresponding mutation view in nextstrain.org/ncov colored by the mutated nucleotide.
For example, the mutations…
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Hi, nice paper and thanks for sharing your code and data publicly!
I have a question about controlling for batch effect.
In `seurat_integration.R`, after you run `IntegrateData()`, you perform d…
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## Site recommendation
Open Source COVID-19 collects all open source sites related to nCoV/COVID-19. It is hosted on GitHub. You are welcome to recommend a site by
http://open-source-covid-19.weil…