This page is Fedora Medical SIG's COVID-19 page.
As the COVID-19 is of many people's interest, the page is created for people who want to contribute or do RPM packaging.
We list up the COVID-19 analysis focusing projects. This is a a top-down approach to find the areas.
- COVID19 Virtual Biohackathon 2020: Wiki, Home Learning, Kick-off meeting video, Wrap-up meeting video.
Bio tools used in COVID-19 analysis
We list up the bio tools projects used in the COVID-19 analysis. This is a bottom-up approach to find the areas.
|nf-core/nanoseq||Nanopore DNA/RNA sequencing analysis||Essential (High)||Stable|
|nf-core/artic||COVID-19 sequencing analysis. Reimplementation of the ARTIC field bioinformatics pipeline||Essential (High)||In development|
|nf-core/viralrecon||COVID-19 sequencing anaysis. Variant calling for viral samples.||Essential (High)||In development|
|nf-core/scrnaseq||Single-cell analysis||Certainly relevant (Middle)||Stable|
|nf-core/smartseq2||Single-cell analysis||Certainly relevant (Middle)||Stable|
|nf-core/sarek||Whole-genome sequencing analysis||Certainly relevant (Middle)||Stable|
|nf-core/mag||Meta-genomics analysis||Certainly relevant (Middle)||Stable|
|nf-core/bcellmagic||Investigations into the immune response||Certainly relevant (Middle)||Stable|
As almost any molecular biology technique can be used to look into some aspect of COVID-19, virtually all the nf-core pipeline can be relevant.
This information comes from the hearing in the nf-core community.
The distributed computing projects are to enable people to help COVID-19 analysis by their computer resources.
According to this article, there are open source hardware projects related to
- Llabware, consumables, reagents
- Polymerase chain reaction (PCR) device